Publications

                        	
@mastersthesis{tosi2020,
  abstract     = {The amount of publications a researcher must absorb has been increasing over the last years. Consequently, among so many options, it is hard for them to identify interesting documents to read related to their studies. Researchers usually search for review articles to understand how a scientific field is organized and to study its state of the art. This option can be unavailable or outdated depending on the studied area. Usually, they have to do such laborious task of background research manually. Recent researches have developed mechanisms to assist researchers in understanding the structure of scientific fields. However, those mechanisms focus on recommending relevant articles to researchers or supporting them in understanding how a scientific field is organized considering documents that belong to it. These methods limit the field understanding, not allowing researchers to study the underlying concepts and relations that compose a scientific field and its sub-areas. This Ms.c. thesis proposes a framework to structure, analyze, and track the evolution of a scientific field at a concept level. Given a set of textual documents as research papers, it first structures a scientific field as a knowledge graph using its detected concepts as vertices. Then, it automatically identifies the field's main sub-areas, extracts their keyphrases, and studies their relations. Our framework enables to represent the scientific field in distinct time-periods. It allows to compare its representations and identify how the field's areas changed over time. We evaluate each step of our framework representing and analyzing scientific data from distinct fields of knowledge in case studies. Our findings indicate the success in detecting the sub-areas based on the generated graph from natural language documents. We observe similar outcomes in the different case studies, indicating that our approach is applicable to distinct domains. This research also contributes with a web-based software tool that allows researchers to use the proposed framework graphically. By using our application, researchers can have an overview analysis of how a scientific field is structured and how it evolved.},
  author       = {Tosi, Mauro Dalle Lucca}, 
  title        = {Constructing Knowledge Graphs from Textual Documents for Scientific Literature Analysis},
  school       = {University of Campinas - Institute of Computing},
  keyword      = {Graph;Complex networks;Centrality;Semantic computing;Scientific knowledge},
  link         = {http://www.lis.ic.unicamp.br/wp-content/uploads/2020/DissertacaoMauro.pdf}
  year         = {2020},
  date         = {2020-03-09}
}

                    	

                        	
@article{bonacin2019u,
	author = {Rodrigo Bonacin and Julio Cesar Dos Reis and Maria Cecília Baranauskas},
	title = {Universal Participatory Design: Achievements and Challenges},
	journal = {Journal on Interactive Systems},
	volume = {10},
	number = {1},
	year = {2019},
	keywords = {},
	abstract = {According to the principles of participatory design, a genuine democratic process requires effective participation of all affected people in the design process; this must include affected disabled users. However, user participation entails complex problems, which are aggravated by conditions of illiteracy and/or aging. This article presents the concept of Universal Participatory Design, a design philosophy and practice that aims to be inclusive during the design process, and which has a positive result for all. We first conducted a review of the literature to understand the limits of the relationships between participatory design and universal design. This paper then addresses some of the challenges to achieve Universal Participatory Design (UPD) by juxtaposing deficits observed in the literature with issues we experienced during two research projects. We discuss the key components of Participatory Design and its relationship to UPD, and establish a research agenda that aims to conceptualize and investigate participatory design with universal access. Our findings indicate the need for flexible design methods, adaptable artifacts, and positive designers’ attitudes when encountering unexpected situations.},
	issn = {2236-3297},
	url = {https://sol.sbc.org.br/journals/index.php/jis/article/view/714}
}


                    	

                        	
@inproceedings{tosi2019c,
  title={C-Rank: A Concept Linking Approach to Unsupervised Keyphrase Extraction},
  author={Tosi, Mauro Dalle Lucca and dos Reis, Julio Cesar},
  booktitle={Research Conference on Metadata and Semantics Research},
  pages={236--247},
  year={2019},
  organization={Springer}
}


                    	

                        	"
@inproceedings{destro2019e,
  author = {Juliana Destro and Julio César dos Reis and Ricardo Torres and Ivan Ricarte},
  title = {Evolution-based Refinement of Cross-language Ontology Alignments},
  booktitle = {Anais Principais do XXXIV Simpósio Brasileiro de Banco de Dados},
  location = {Fortaleza},
  year = {2019},
  keywords = {},
  issn = {0000-0000},
  pages = {61--72},
  publisher = {SBC},
  address = {Porto Alegre, RS, Brasil},
  doi = {10.5753/sbbd.2019.8808},
  url = {https://sol.sbc.org.br/index.php/sbbd/article/view/8808}
}


                    	

                        	
@inproceedings{regino2019,
  author    = {Andr{\'{e}} Gomes Regino and
               Julio Kiyoshi Rodrigues Matsoui and
               J{\'{u}}lio C{\'{e}}sar dos Reis and
               Rodrigo Bonacin and
               Ahsan Morshed and
               Timos Sellis},
  editor    = {Ali Hasnain and
               V{\'{\i}}t Nov{\'{a}}cek and
               Michel Dumontier and
               Dietrich Rebholz{-}Schuhmann},
  title     = {Understanding Link Changes in {LOD} via the Evolution of Life Science
               Datasets},
  booktitle = {Proceedings of the Workshop on Semantic Web Solutions for Large-Scale
               Biomedical Data Analytics co-located with 18th International Semantic
               Web Conference {(ISWC} 2019), Auckland, New Zealand, October 27th,
               2019},
  series    = {{CEUR} Workshop Proceedings},
  volume    = {2477},
  pages     = {40--54},
  publisher = {CEUR-WS.org},
  year      = {2019},
  urlPaper  = {http://ceur-ws.org/Vol-2477/paper\_4.pdf},
  urlWeb    = {http://ceur-ws.org/Vol-2477/},
  biburl    = {https://dblp.org/rec/conf/semweb/ReginoMRBMS19.bib},
  bibsource = {dblp computer science bibliography, https://dblp.org},
}

                    	

                        	
@CONFERENCE{Yamamoto2019u,
  author={Yamamoto, V.E. and dos Reis, J.C.},
  title={Updating ontology alignments in life sciences based on new concepts and their context},
  journal={CEUR Workshop Proceedings},
  year={2019},
  volume={2477},
  pages={16-30},
  url={https://www.scopus.com/inward/record.uri?eid=2-s2.0-85074556967&partnerID=40&md5=c3faad9a24386c21b55200bb5356a84d},
  abstract={Ontologies and their associated mappings in life sciences play a central role in several semantic-enabled tasks. However, the continuous evolution of these ontologies requires updating existing concept alignments. Whereas mapping maintenance techniques have mostly handled revision and removal type of ontology changes, the addition of concepts demands further studies. This article proposes a technique to refine a set of established mappings based on the evolution of biomedical ontologies. We investigate ways of suggesting correspondences with the new version of the ontology without applying a matching operation to the whole set of ontology entities. Obtained results explore the neighbourhood of concepts in the alignment process to update mapping sets. Our experimental evaluation with several versions of aligned biomedical ontologies shows the effectiveness in considering the context of new concepts. Copyright ©2019 for this paper by its authors.},
  author_keywords={Biomedical vocabulary;  Concept addition;  Mapping refinement;  Ontology alignment;  Ontology evolution},
  publisher={CEUR-WS},
  document_type={Conference Paper},
  source={Scopus}
}


                    	

                        	
@inproceedings{Santo2019,
  title={Exploring Semantics in Clinical Data Interoperability},
  author={Jacqueline do Espírito Santo and Erich Vinicius de Paula and Claudia Bauzer Medeiros},
  booktitle={Advances in Conceptual Modeling},
  pages={201-210},
  year={2019},
  organization={Springer International Publishing}
}


                    	

                        	
@CONFERENCE{Rossanez2019g,
  author={Rossanez, A. and dos Reis, J.C.},
  title={Generating knowledge graphs from scientific literature of degenerative diseases},
  journal={CEUR Workshop Proceedings},
  year={2019},
  volume={2427},
  pages={12-23},
  url={https://www.scopus.com/inward/record.uri?eid=2-s2.0-85071743429&partnerID=40&md5=9a5a3c77214912a8d4b7132f6a2ab283},
  abstract={Degenerative diseases, such as the Alzheimer’s Disease, can be very serious and life-threatening. As the scientific community strives to fully understand their exact root causes and advance their research on the domain, a massive amount of knowledge is generated. To represent and link all this knowledge, we propose the generation of knowledge graphs from the scientific literature. We aim to provide researchers the ability to relate their new discoveries with the current knowledge and possibly formulate new hypotheses to further advance the research. In this paper, we describe a method to extract information from scientific literature for generating a knowledge graph reusing existing domain ontologies. We demonstrate the effectiveness of our method by generating knowledge graphs from a set of abstracts of scientific papers on Alzheimer’s Disease. Copyright © 2019 for this paper by its authors.},
  author_keywords={Information extraction;  Knowledge graphs;  Ontologies;  RDF triples},
  publisher={CEUR-WS},
  document_type={Conference Paper},
  source={Scopus}
  }


                    	

                        	
@CONFERENCE{Destro2019o,
  author={Destro, J.M. and dos Reis, J.C. and da Silva Torres, R. and Ricarte, I.},
  title={Ontology changes-driven semantic refinement of cross-language biomedical ontology alignments},
  journal={CEUR Workshop Proceedings},
  year={2019},
  volume={2477},
  pages={31-15},
  url={https://www.scopus.com/inward/record.uri?eid=2-s2.0-85074606707&partnerID=40&md5=f22a2f846062015df7a6df66ee247be6},
  abstract={Biomedical computational systems benefits from the use of ontologies. However, interconnectivity between these systems is a challenge, specially when the ontologies supporting each system are described in different natural languages. Ontology alignment plays a key role in data exchange. Existing ontology matching approaches usually provide only equivalent type of relation in the generated mappings. In this article, we propose a refinement technique to enable the update of the semantic type of the mapping beyond equivalence. Our approach relies on information from the ontology evolution. Our evaluation considered LOINC releases in different languages. The results demonstrate the usefulness of ontology evolution changes to support the process of mapping refinement. Copyright ©2019 for this paper by its authors.},
  author_keywords={Cross-language alignment;  Mapping refinement;  Ontology evolution},
  publisher={CEUR-WS},
  document_type={Conference Paper},
  source={Scopus}
}


                    	

                        	
@inproceedings{destro2019evocros,
  title={EVOCROS: Results for OAEI 2019},
  author={Destro, Juliana Medeiros and Vargas, Javier A and dos Reis, Julio Cesar and Torres, Ricardo Da Silva},
  year={2019},
  organization={CEUR Workshop Proceedings}
}


                    	

                        	
@inproceedings{AdosSantos2019,
  author = {Santos, Andressa C. dos and Muriana; Lu\~{a} M.; Pimenta Josiane R. O. G.; Silva, Jos\'{e} V. da; Moreira, Eliana A.; Reis, Julio C. dos},
  title = {Investigating Aspects of Affectibility for Universal Access in Socioenactive System Scenarios},
  year = {2019},
  isbn = {9781450369718}, 
  publisher = {Association for Computing Machinery},
  address = {New York, NY, USA},
  url = {https://doi.org/10.1145/3357155.3358475},
  doi = {10.1145/3357155.3358475},
  booktitle = {Proceedings of the 18th Brazilian Symposium on Human Factors in Computing Systems},
  articleno = {33},
  numpages = {11},
  keywords = {universal access; socioenactive; affectibility; emotion; PAff},
  location = {Vit\'{o}ria, Esp\'{\i}rito Santo, Brazil},
}


                    	

                        	
@INPROCEEDINGS{virginio2019f,
  author={L. {Virginio} and J. C. {dos Reis}},
  booktitle={2019 12th International Congress on Image and Signal Processing, BioMedical Engineering and Informatics (CISP-BMEI)}, 
  title={Finding Relations Between Requirements for Healthcare Information Systems Use in Hospitals: A Study on EMRAM and JCI}, 
  year={2019},
  volume={},
  number={},
  pages={1-6},
  abstract={EMRAM is a maturity model which goal is to measure the adoption and utilization of HIS functions in hospitals. However, maturity models regarding HIS in healthcare settings are not comprehensive and lack detail. Therefore, it is important for EMRAM to learn from other sources of HIS evaluation in healthcare organizations, such as JCI. In addition, it is important to understand how to adapt processes and implement technologies that can ensure compliance with the requirements established by both bodies. In this paper, we carry out an evaluation to identify relations between JCI and EMRAM requirements. We extracted EMRAM and JCI requirements and identified relations between them, with further validation by specialist. We identified 127 relations between JCI requirements and EMRAM and/or HIS. Six JCI requirements specifically related to IT are not currently required by EMRAM and could be used to promote the evolution of the maturity model. We also identified the JCI requirements that can be supported by HIS, which can be used by healthcare organizations to facilitate the management of JCI and EMRAM conformance.},
  keywords={health care;hospitals;medical information systems;healthcare information systems;hospitals;maturity model;healthcare organizations;EMRAM requirements;JCI requirements;HIS evaluation;Healthcare Information System;Electronic Medical Record Adoption Model;Joint Commission International},
  doi={10.1109/CISP-BMEI48845.2019.8965782},
  ISSN={},
  month={Oct}
  }


                    	

                        	
@inproceedings{muriana2019a,
 author = {Luã Marcelo Muriana and Mauro Dalle Lucca Tosi and Julio Cesar dos Reis},
 title = {Aprendendo via o Papel de Designer e de Stakeholder: Uma Estratégia Pedagógica para Ensino de IHC},
 booktitle = {Anais Estendidos do XVIII Simpósio Brasileiro sobre Fatores Humanos em Sistemas Computacionais},
 location = {Vitória},
 year = {2019},
 keywords = {},
 issn = {2177-9384},
 pages = {88--93},
 publisher = {SBC},
 address = {Porto Alegre, RS, Brasil},
 doi = {10.5753/ihc.2019.8406},
 url = {https://sol.sbc.org.br/index.php/ihc_estendido/article/view/8406}
}



                    	

                        	
@INPROCEEDINGS{borges2019s,
  author={M. V. {Macêdo Borges} and J. C. {dos Reis}},
  booktitle={2019 IEEE 19th International Conference on Advanced Learning Technologies (ICALT)}, 
  title={Semantic-Enhanced Recommendation of Video Lectures}, 
  year={2019},
  volume={2161-377X},
  number={},
  pages={42-46},
  abstract={Learning support systems explore several audio-visual resources to consider individual needs and learning styles aiming to stimulate learning experiences. However, the large amount of educational content in different formats and the possibility of making them available in a fragmented way turns difficult the tasks of accessing these resources and understanding the concepts under study. Although literature has proposed approaches to explore explicit semantic representation through artifacts such as ontologies in learning support systems, this research line still requires further investigation efforts. In this paper, we propose a method for recommending educational content by exploring the use of semantic annotations over textual transcriptions from video lessons. Our investigation addresses the difficulties in extracting entities from natural language texts as subtitles of videos. We report on major challenges to achieve the representation of video transcriptions as semantic annotations for automatic recommendation of educational content.},
  keywords={computer aided instruction;ontologies (artificial intelligence);text analysis;semantic-enhanced recommendation;video lectures;support systems;audio-visual resources;individual needs;learning styles;educational content;explicit semantic representation;research line;investigation efforts;semantic annotations;video lessons;video transcriptions;automatic recommendation;textual transcriptions;learning experiences;natural language texts;Ontologies;Semantics;Annotations;Task analysis;Computer science;Indexing;Ontology, Learning support, Recommendation System, Semantic Annotation},
  doi={10.1109/ICALT.2019.00013},
  ISSN={2161-377X},
  month={July}
  }


                    	

                        	
@InProceedings{victorelli2019p,
  author="Victorelli, Eliane Zambon
  and Reis, Julio Cesar dos
  and Santos, Antonio Alberto Souza
  and Schiozer, Denis Jos{\'e}",
  editor="Lamas, David
  and Loizides, Fernando
  and Nacke, Lennart
  and Petrie, Helen
  and Winckler, Marco
  and Zaphiris, Panayiotis",
  title="Participatory Evaluation of Human-Data Interaction Design Guidelines",
  booktitle="Human-Computer Interaction -- INTERACT 2019",
  year="2019",
  publisher="Springer International Publishing",
  address="Cham",
  pages="475--494",
  abstract="The design of visual analytics tools for facilitating human-data interaction (HDI) plays a key role to help people identifying useful knowledge from large masses of data. Designing data visualization based on guidelines is relevant. However, it is necessary to further promote the engagement of people in evaluation activities in the design process. Stakeholders need to comprehend the guidelines to help with the evaluation results and design decisions. In this paper, we propose participatory evaluation practices based on HDI design guidelines. The practices aim to create the conditions to participants from any profile collaborate with the design guidelines evaluation. The practices were used on a design problem involving interactions with coordinated visualization. The context of application was a visual analytic tool supporting decisions related to the production strategy in oil reservoirs with the participation of key stakeholders. The results indicate that participants were able to understand the design guidelines and took advantage from them in the design decisions.",
  isbn="978-3-030-29381-9"
}



                    	

                        	
@INPROCEEDINGS{lombello2019s,
  author={L. O. {Lombello} and J. C. {dos Reis} and R. {Bonacin}},
  booktitle={2019 IEEE 28th International Conference on Enabling Technologies: Infrastructure for Collaborative Enterprises (WETICE)}, 
  title={Soft Ontologies as Fuzzy RDF Statements}, 
  year={2019},
  volume={},
  number={},
  pages={289-294},
  abstract={Soft ontologies enable knowledge representation in a flexible way because they are more susceptible to changes in their interrelationships over time. The transformation of a nonstandardized model of information into a computer-interpretable representation is not an easy task. Our investigation expands the concept of soft ontologies to fuzzy data represented as fuzzy RDF triples. In this paper, we elaborate a process that transforms a soft ontology implemented in the form of a matrix of probabilities into a fuzzy RDF dataset. The study presents the way the matrix of probabilities are used in the representation and how the data elements are triplified exploring fuzzy characteristics. We apply the proposal in an experimental scenario, by constructing a soft ontology which expresses a repertoire of actions in an mBot robot. Then, the facts are triplified to fuzzy RDF statements. Our results present original aspects related to the transformation of soft ontologies to fuzzy RDF triples.},
  keywords={data handling;fuzzy set theory;knowledge representation;matrix algebra;ontologies (artificial intelligence);probability;soft ontology;fuzzy RDF statements;fuzzy data;fuzzy RDF triples;fuzzy RDF dataset;matrix of probabilities;data elements;fuzzy characteristics;mBot robot;Ontologies;Resource description framework;Automobiles;Proposals;Vocabulary;Data models;Computational modeling;Ontology, Soft Ontologies, Fuzzy, RDF, Triples, Triplification, Linked Data},
  doi={10.1109/WETICE.2019.00067},
  ISSN={2641-8169},
  month={June},}


                    	

                        	
@INPROCEEDINGS{borges2019e,
  author={M. V. {Macedo Borges} and J. C. {dos Reis} and G. {Pereira Gribeler}},
  booktitle={2019 IEEE 28th International Conference on Enabling Technologies: Infrastructure for Collaborative Enterprises (WETICE)}, 
  title={Empirical Analysis of Semantic Metadata Extraction from Video Lecture Subtitles}, 
  year={2019},
  volume={},
  number={},
  pages={301-306},
  abstract={Video lectures improve the learning experiences considering individual's needs and learning styles. However, the large amount of educational content and their availability in a fragmented way turns difficult the tasks of accessing these resources and understanding the concepts under study. Extracting relevant information from video lectures can be useful for recommendation purposes and for helping the interpretation of a concept in an exact moment of a lecture. The extraction of semantic metadata from a video natural language subtitle involves challenges in dealing with informal aspects of language and the detection of semantic classes from the text. In this paper, we conduct an empirical analysis of semantic annotation approaches supported by ontologies in the extraction of relevant metadata from textual transcriptions of video lectures in Computer Science. The obtained results indicate that existing tools can be useful for the studied task and the video lecture semantic metadata extraction process is highly influenced by the underlying ontologies.},
  keywords={computer aided instruction;computer science education;information retrieval;interactive video;meta data;multimedia computing;natural language processing;text analysis;video lecture subtitles;video lectures;video natural language subtitle;semantic classes;semantic annotation approaches;semantic metadata extraction process;learning experiences;learning styles;educational content;ontologies;textual transcriptions;computer science;Ontologies;Semantics;Tools;Metadata;Computer science;Task analysis;Natural languages;Ontology, Semantic Annotation, Metadata extraction, Video lectures},
  doi={10.1109/WETICE.2019.00069},
  ISSN={2641-8169},
  month={June}
  }


                    	

                        	
@phdthesis{Saraiva2019,
abstract= {Digital educational documents are growing in size and variety, catering to an increasingly heterogeneous public. As a consequence, students are facing difficulties to find their way through such material. Several scientists have created online repositories to store and facilitate access to these documents. Unfortunately, in most such repositories documents are stored in a haphazard way. This hampers distinguishing among contents of these materials, as well as their retrieval. As a consequence, students interested in accessing relevant material revert to (traditional) Web search engines, or to browsing through one specific repository. In most cases, the results of invoking those search engines are presented as a set (or disjunction) of potentially interesting documents, which may not be adapted to the learning purpose. One of the initiatives that have emerged to solve this problem involves the use of automatic classification algorithms, e.g. Topic Modeling and Topic Labeling. However, them remains the difficulty to analyze implicit relationships among topics of materials and lecturers from different places, even within a single repository. Moreover, these solutions have not been applied to sets of documents with different formats, and do not take advantage of additional information - e.g., metadata to extract topics. This work presents CIMAL, a framework for flexible analysis of educational material repositories; CIMAL combines semantic classification, taxonomies and graph structures to extract topics and their multiple relationships. We validated our proposal through a prototype that uses real materials from Coursera (Johns Hopkins University and University of Michigan) and Higher Education Institute, from Brazil. As far as we known, this is the first time that both slide and video features guide text analysis, topic classification techniques and relationship discovery among documents. The elicitation of topics covered in various educational documents and of their potential relationships can support teachers and students in undertaking academic activities that are more dynamic than conventional ones – e.g., in which new relationships are found between different subjects from different sources. This can also make it easier to search the most appropriate items in educational repositories to learn new concepts, enhancing the development of new courses. From the computational point of view, this research contributes to the improvement of techniques for handling unstructured documents and documents of different formats.},
 author = {Márcio de Carvalho Saraiva},
 date = {2019-08-14},
 keyword = {Teaching materials;Education - Technological innovations;Data mining;Classification},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2019/TeseMarcio.pdf},
 school = {University of Campinas - Institute of Computing},
 title = {Relationships among educational materials through the extraction of implicit topics},
 year = {2019}
}



                    	

                        	
@InProceedings{dosSantos2019i,
  author="dos Santos, Andressa Cristina
  and Maike, Vanessa Regina Margareth Lima
  and M{\'e}ndez Mendoza, Yusseli Lizeth
  and da Silva, Jos{\'e} Valderlei
  and Bonacin, Rodrigo
  and Dos Reis, Julio Cesar
  and Baranauskas, Maria Cec{\'i}lia Calani",
  editor="Antona, Margherita
  and Stephanidis, Constantine",
  title="Inquiring Evaluation Aspects of Universal Design and Natural Interaction in Socioenactive Scenarios",
  booktitle="Universal Access in Human-Computer Interaction. Theory, Methods and Tools",
  year="2019",
  publisher="Springer International Publishing",
  address="Cham",
  pages="39--56",
  abstract="New technologies and ubiquitous systems present new forms and modalities of interaction. Evaluating such systems, particularly in the novel socioenactive scenario, poses a difficult issue, as existing instruments do not capture all aspects intrinsic to such scenario. One of the key aspects is the wide range of characteristics and needs of both users and technology involved. In this paper, we are concerned with aspects of both Universal Design (UD) and Natural User Interfaces (NUIs). We present a case study where we applied, within a socioenactive scenario, evaluation instruments relying on principles and heuristics from these areas. The scenario involved six children from a hospital that treats craniofacial deformities, playing in a rich interactive environment with displays and plush animals that respond to hugs. Our results based on the analysis of the evaluation conducted in the case study suggest informed recommendations of how to use the evaluation instruments in the context of socioenactive systems and their limitations.",
  isbn="978-3-030-23560-4"
}


                    	

                        	
@InProceedings{ramos2019p,
  author="Ramos, Pedro Alan T.
  and dos Reis, Julio Cesar
  and de Souza dos Santos, Antonio Alberto
  and Schiozer, Denis Jos{\'e}",
  editor="Kurosu, Masaaki",
  title="Participatory Design of System Messages in Petroleum Fields Management Software",
  booktitle="Human-Computer Interaction. Design Practice in Contemporary Societies",
  year="2019",
  publisher="Springer International Publishing",
  address="Cham",
  pages="459--475",
  abstract="Users face difficulties in understanding the progress of simulation tasks in oil reservoirs. It is necessary to turn clear to users when some task suffers errors because this is time consuming. In this paper, we propose the use of participatory design to conceive Application System Messages (ASMs) in software tools implemented to support studies related to Numerical Simulation and Management of Petroleum Reservoirs. We explored braindrawing and brainwriting techniques to acquire early concepts for a redesign of the ASMs' presentation and content. Our obtained results indicate that the use of participatory practices is useful to improve the redesign of ASMs in our study context.",
  isbn="978-3-030-22636-7"
}


                    	

                        	
@InProceedings{caceffo2019c,
  author="Caceffo, Ricardo
  and Alves Moreira, Eliana
  and Bonacin, Rodrigo
  and dos Reis, Julio Cesar
  and Luque Carbajal, Marleny
  and D'Abreu, Jo{\~a}o Vilhete V.
  and Brennand, Camilla V. L. T.
  and Lombello, Luma
  and Valente, Jos{\'e} Armando
  and Baranauskas, Maria Cec{\'i}lia Calani",
  editor="Zaphiris, Panayiotis
  and Ioannou, Andri",
  title="Collaborative Meaning Construction in Socioenactive Systems: Study with the mBot",
  booktitle="Learning and Collaboration Technologies. Designing Learning Experiences",
  year="2019",
  publisher="Springer International Publishing",
  address="Cham",
  pages="237--255",
  abstract="The design of interactive systems concerned with the impact of the technology on the human agent as well as the effect of the human experience on the technology is not a trivial task. Our investigation goes towards a vision of socioenactive systems, by supporting and identifying how a group of people can dynamically and seamlessly interact with the technology. In this paper, we elaborate a set of guidelines to design socioenactive systems. We apply them in the construction of a technological framework situated in an educational environment for children around the age of 5 (N = 25). The scenario was supported by educational robots, programmed to perform a set of actions mimicking human emotional expressions. The system was designed to shape the robots' behavior according to the feedback of children's responses in iterative sessions. This entails a complete cycle, where the robot impacts the children and is affected by their experiences. We found that children create hypotheses to make sense of the robot's behavior. Our results present original aspects related to a social enactive system.",
  isbn="978-3-030-21814-0"
}


                    	

                        	
@CONFERENCE{Victorelli2019d,
  author={Victorelli, E.Z. and Dos Reis, J.C. and Souza Santos, A.A. and Schiozer, D.J.},
  title={Design process for human-data interaction: Combining guidelines with semio-participatory techniques},
  journal={ICEIS 2019 - Proceedings of the 21st International Conference on Enterprise Information Systems},
  year={2019},
  volume={2},
  pages={410-421},
  url={https://www.scopus.com/inward/record.uri?eid=2-s2.0-85067430856&partnerID=40&md5=f5ef73373a1a2196c5c421dece0d9a1b},
  author_keywords={Design Approaches;  Human-Data Interaction;  Visual Analytics},
  document_type={Conference Paper},
  source={Scopus}
}


                    	

                        	
@inproceedings{venero2019t,
  author = {Venero, Sheila Katherine and Reis, Julio Cesar dos and Montecchi, Leonardo and Rubira, Cec\'{\i}lia Mary Fischer},
  title = {Towards a Metamodel for Supporting Decisions in Knowledge-Intensive Processes},
  year = {2019},
  isbn = {9781450359337},
  publisher = {Association for Computing Machinery},
  address = {New York, NY, USA},
  url = {https://doi.org/10.1145/3297280.3297290},
  doi = {10.1145/3297280.3297290},
  booktitle = {Proceedings of the 34th ACM/SIGAPP Symposium on Applied Computing},
  pages = {75–84},
  numpages = {10},
  keywords = {knowledge-intensive process, business process management systems, process-aware information systems, business process modeling, case management, knowledge management},
  location = {Limassol, Cyprus},
  series = {SAC ’19}
}


                    	

                        	
@CONFERENCE{Wang2019m,
  author={Wang, Y. and Dos Reis, J.C. and Borggren, K.M. and Vaz Salles, M.A. and Medeiros, C.B. and Zhou, Y.},
  title={Modeling and building IoT data platforms with actor-oriented databases},
  journal={Advances in Database Technology - EDBT},
  year={2019},
  volume={2019-March},
  pages={512-523},
  doi={10.5441/002/edbt.2019.47},
  url={https://www.scopus.com/inward/record.uri?eid=2-s2.0-85064947935&doi=10.5441%2f002%2fedbt.2019.47&partnerID=40&md5=3b80806b1652019da853394ca911f61b},
  document_type={Conference Paper},
  source={Scopus}
}


                    	

                        	
@article{moreira2019t,
	author = {Eliana Moreira e Julio DOS REIS e Maria Cecília Baranauskas},
	title = {Artefatos Tangíveis e a Avaliação de Estados Afetivos por Crianças},
	journal = {Revista Brasileira de Informática na Educação},
	volume = {27},
	number = {01},
	year = {2019},
	keywords = {Tangible interfaces; Evaluation; Affective states; Ludic},
	abstract = {Sistemas computacionais contemporâneos e ubíquos demandam cada vez mais avaliações que consideram aspectos para além da ergonomia, usabilidade e acessibilidade, para incluir também meios de entender o estado afetivo dos envolvidos na interação. Contudo, principalmente quando as partes envolvidas são crianças, é necessário promover meios lúdicos e acessíveis para envolver as pessoas nas atividades de avaliação, pois espera-se que a ferramenta utilizada na avaliação permita que os envolvidos se expressem de acordo com sua idade e compreensão. Trabalhos existentes propõem soluções abstratas que dificultam a compreensão e a participação das pessoas na expressão de estados afetivos. Neste artigo, desenvolvemos e avaliamos o ambiente TangiSAM, que engloba conjuntos de bonecos tridimensionais concretos que se utilizam de tecnologias tangíveis que permitem efetuar avaliação de estados afetivos de maneira lúdica. Conduzimos um estudo em um espaço educativo real com crianças e professoras para entender se os artefatos tangíveis do TangiSAM favorecem uma melhor experiência de autoavaliação. Descobrimos que o TangiSAM obteve maior preferência pelos participantes quando comparado com outras propostas de representação de estados afetivos.},
	issn = {2317-6121},	pages = {58}	doi = {10.5753/rbie.2019.27.01.58},
	url = {https://www.br-ie.org/pub/index.php/rbie/article/view/7753}
}


                    	

                        	
@InProceedings{virginio2018a,
  author="Virginio, Luiz
  and dos Reis, Julio Cesar",
  editor="Auer, S{\"o}ren
  and Vidal, Maria-Esther",
  title="Automated Coding of Medical Diagnostics from Free-Text: The Role of Parameters Optimization and Imbalanced Classes",
  booktitle="Data Integration in the Life Sciences",
  year="2019",
  publisher="Springer International Publishing",
  address="Cham",
  pages="122--134",
  abstract="The extraction of codes from Electronic Health Records (EHR) data is an important task because extracted codes can be used for different purposes such as billing and reimbursement, quality control, epidemiological studies, and cohort identification for clinical trials. The codes are based on standardized vocabularies. Diagnostics, for example, are frequently coded using the International Classification of Diseases (ICD), which is a taxonomy of diagnosis codes organized in a hierarchical structure. Extracting codes from free-text medical notes in EHR such as the discharge summary requires the review of patient data searching for information that can be coded in a standardized manner. The manual human coding assignment is a complex and time-consuming process. The use of machine learning and natural language processing approaches have been receiving an increasing attention to automate the process of ICD coding. In this article, we investigate the use of Support Vector Machines (SVM) and the binary relevance method for multi-label classification in the task of automatic ICD coding from free-text discharge summaries. In particular, we explored the role of SVM parameters optimization and class weighting for addressing imbalanced class. Experiments conducted with the Medical Information Mart for Intensive Care III (MIMIC III) database reached 49.86{\%} of f1-macro for the 100 most frequent diagnostics. Our findings indicated that optimization of SVM parameters and the use of class weighting can improve the effectiveness of the classifier.",
  isbn="978-3-030-06016-9"
  }


                    	

                        	
@phdthesis{Carvalho2018b,
 abstract = {Scripts and Scientific Workflow Management Systems (SWfMSs) are common approaches that have been used to automate the execution flow of processes and data analysis in scientific (computational) experiments. Although widely used in many disciplines, scripts are hard to understand, adapt, reuse, and reproduce. For this reason, several solutions have been proposed to aid experiment reproducibility for script-based environments. However, they neither allow to fully document the experiment nor do they help when third parties want to reuse just part of the code. SWfMSs, on the other hand, help documentation and reuse by supporting scientists in the design and execution of their experiments, which are specified and run as interconnected (reusable) workflow components (a.k.a. building blocks). While workflows are better than scripts for understandability and reuse, they still require additional documentation. During experiment design, scientists frequently create workflow variants, e.g., by changing workflow components. Reuse and reproducibility require understanding and tracking variant provenance, a time-consuming task. This thesis aims to support reproducibility and reuse of computational experiments. To meet these challenges, we address two research problems: (1) understanding a computational experiment, and (2) extending a computational experiment. Our work towards solving these problems led us to choose workflows and ontologies to answer both problems. The main contributions of this thesis are thus: (i) to present the requirements for the conversion of script to reproducible research; (ii) to propose a methodology that guides the scientists through the process of conversion of script-based experiments into reproducible workflow research objects; (iii) to design and implement features for quality assessment of computational experiments; (iv) to design and implement W2Share, a framework to support the conversion methodology, which exploits tools and standards that have been developed by the scientific community to promote reuse and reproducibility; (v) to design and implement OntoSoft-VFF, a framework for capturing information about software and workflow components to support scientists manage workflow exploration and evolution. Our work is showcased via use cases in Molecular Dynamics, Bioinformatics and Weather Forecasting.},
 author = {Lucas Carvalho},
 date = {2018-12-14},
 keyword = {scientific workflows; ontologies; reuse; reproducibility},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2018/carvalho-lucas-thesis-2018.pdf},
 school = {University of Campinas - Institute of Computing},
 title = {Reproducibility and Reuse of Experiments in eScience: Workflows, Ontologies and Scripts},
 year = {2018}
}


                    	

                        	
@conference{Carvalho2018Semantic,
 abstract = {Scientific workflow management systems play a major role in the design, execution and documentation of computational experiments. However, they have limited support for managing workflow evolution and exploration because they lack rich metadata for the software that implements workflow components. Such metadata could be used to support scientists in exploring local adjustments to a workflow, replacing components with similar software, or upgrading components upon release of newer software versions. To address this challenge, we propose OntoSoft-VFF (Ontology for Software Version, Function and Functionality), a software metadata repository designed to capture information about software and workflow components that is important for managing workflow exploration and evolution. Our approach uses a novel ontology to describe the functionality and evolution through time of any software used to create workflow components. OntoSoft-VFF is implemented as an online catalog that stores semantic metadata for software to enable workflow exploration through understanding of software functionality and evolution. The catalog also supports comparison and semantic search of software metadata. We showcase OntoSoft-VFF using machine learning workflow examples. We validate our approach by testing that a workflow system could compare differences in software metadata, explain software updates, and describe the general functionality of workflow steps.},
 address = {Amsterdam, the Netherlands, October 28-November 01},
 author = {Lucas A. M. C. Carvalho and Khalid Belhajjame and Claudia Bauzer Medeiros},
 booktitle = {Proceedings of the 2018 IEEE 14th International Conference on eScience},
 date = {2018-10-28},
 keyword = {scientific workflows, software metadata, software functions, software registries, workflow evolution},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2018/semantic-software-metadata-for-workflow-exploration-and-evolution-camera-ready.pdf},
 publisher = {IEEE},
 title = {Semantic Software Metadata for Workflow Exploration and Evolution},
 year = {2018}
}



                    	

                        	
@INPROCEEDINGS{justo2018e,
  author={A. V. {Justo} and J. {Cesar dos Reis} and I. {Calado} and R. {Bonacin} and F. R. {Jensen}},
  booktitle={2018 IEEE 27th International Conference on Enabling Technologies: Infrastructure for Collaborative Enterprises (WETICE)}, 
  title={Exploring Ontologies to Improve the Empathy of Interactive Bots}, 
  year={2018},
  volume={},
  number={},
  pages={261-266},
  abstract={Bots are virtual agents that people can interact with text messages. They are mostly made with the aim of mimicking a person in conversations. Although several studies have devised natural language processing techniques for the creation of bots, few studies explore the use of ontologies in the development of novel context-aware interactive bots. In this article, we propose a software architecture that allows ontology-based interpretation of several types of data (audio, video, and text) from the bot's environment. We define formal concept-based rules to express affective behavior aiming to improve the empathy of bots. The proposed technique relies on Semantic technologies such as OWL and SWRL languages. This technique is illustrated in an interaction scenario.},
  keywords={interactive systems;knowledge representation languages;natural language processing;ontologies (artificial intelligence);software architecture;interaction scenario;virtual agents;text messages;natural language;context-aware interactive bots;ontology-based interpretation;formal concept-based rules;OWL;SWRL languages;semantic technologies;Ontologies;Computer architecture;Personal digital assistants;Semantics;Proposals;Neurons;Face;Interactive bots;Affectivity;Ontogologies;SWRL},
  doi={10.1109/WETICE.2018.00057},
  ISSN={1524-4547},
  month={June},}


                    	

                        	
@inproceedings{destro2018e,
  title={EVOCROS: Results for OAEI 2018},
  author={Destro, Juliana Medeiros and dos Santos, Gabriel Oliveira and dos Reis, Julio Cesar and Torres, Ricardo da S. and Carvalho, Ariadne Maria B. R. and Ricarte, Ivan Luiz Marques},
  year={2018}
}


                    	

                        	
@inproceedings{ abmece18,
 author = { Abdessalem, Talel and Medeiros, Claudia Bauzer and Cellary, W.  and Gancarski, W. and Manouvrier, M. and Rukoz, M. and Zam, M.},
 booktitle = {34ème Conférence sur la Gestion de Données - Principes, Technologies et Applications (BDA 2018)},
pages = {1-10},
address={Bucarest},
 title = {{ The Database Version Approach: Overview and Future directions }},
 year = {2018}
}



                    	

                        	
@article{DOSREIS2018146,
  title = "Intenticons: Participatory selection of emoticons for communication of intentions",
  journal = "Computers in Human  Behavior",
  volume = "85",
  pages = "146 - 162",
  year = "2018",
  issn = "0747-5632",
  doi = "https://doi.org/10.1016/j.chb.2018.03.046",
  url = "http://www.sciencedirect.com/science/article/pii/S0747563218301511",
  author = "Julio Cesar [dos Reis] and Rodrigo Bonacin and Heiko Horst Hornung and M. Cecília C. Baranauskas",
  keywords = "Emoticons, Meanings, Intentions, Pragmatics, Computer-mediated communication, User participation",
  abstract = "Previous studies have emphasised that emoticons are able to express more than emotions, assuming a central role on computer mediation communication. Explicit consideration of intentions in computer systems might play a significant role for improving communication and collaboration. Nevertheless, web-mediated communication lacks elements that are natural in face-to-face conversation for signalling intention. In this article, we propose so-called Intenticons as a set of emoticons designed (and/or selected) to communicate intentions as an interactive mechanism to support users in expressing intentions. This study presents an experimental analysis to evaluate whether Intenticons designed in a participatory way convey intentions better than emoticons selected by designers in a non-participatory way. We rely on a theoretical framework based on Speech Act Theory and Semiotics to categorize different classes of intentions. The achieved results, based on statistical tests, revealed that the Intenticons were more adequate for most of the intention classes. Our findings demonstrated the value of the user involvement for obtaining adequate emoticons in intention sharing."
}


                    	

                        	
@conference{deSaraiva2018,
 abstract = {Digital educational documents are growing in size and variety,
and scientists are facing difficulties to find their way
through them. One of the initiatives that have emerged to
solve this problem involves the use of automatic classification
algorithms. However, it is difficult to analyze implicit
relationships among topics of materials. This paper presents
CIMAL, a framework for enabling flexible access to material
stored in arbitrary repositories. CIMAL combines semantic
classification, taxonomies and graphs to elicit relationships
among topics of educational documents. We validated
our work using materials from Coursera (courses offered by
Johns Hopkins University and University of Michigan) and
a Higher Education Institute, from Brazil.},
 address = {Rio de Janeiro, Rio de Janeiro, Brazil},
 author = {Márcio de Carvalho Saraiva and Claudia Bauzer Medeiros},
 booktitle = {Proceedings of the VLDB 2018 Ph.D. Workshop, August 27, 2018. Rio de
Janeiro, Brazil},
 date = {2018-08-27},
 keyword = {Components, Content analysis and feature selection, educational material, Information extraction, Topics Classification},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2018/Marcio-PHDVLDB.pdf"},
 organization = {IEEE},
 title = {Relating educational materials via extraction of their topics},
 year = {2018}
}



                    	

                        	
@conference{deSaraiva2018b,
 abstract = {Digital educational documents are growing in size and variety, and
scientists are facing difficulties to find their way through them. One of the initiatives
that have emerged to solve this problem involves the use of automatic
classification algorithms. However, it is difficult to analyze implicit relationships
among topics of materials. This paper presents CIMAL, a framework for
enabling flexible access to material stored in arbitrary repositories. CIMAL
combines semantic classification, taxonomies and graphs to elicit relationships
among topics of educational documents. We validated our work using materials
from Coursera (courses offered by Johns Hopkins University and University of
Michigan) and a Higher Education Institute, from Brazil.},
 address = {Rio de Janeiro, Rio de Janeiro, Brazil},
 author = {Márcio de Carvalho Saraiva and Claudia Bauzer Medeiros},
 booktitle = {Proceedings of the SBC 33rd Brazilian Symposium on Databases (SBBD) 2018, Rio de
Janeiro, Brazil},
 date = {2018-08-25},
 keyword = {Components, Content analysis and feature selection, educational material, Information extraction, Topics Classification},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2018/Marcio-SBBD2018.pdf"},
 organization = {IEEE},
 title = {Correlating Educational Documents from Different Sources Through Graphs and Taxonomies},
 year = {2018}
}



                    	

                        	
@article{deAraujo2018u,
  title={Understanding interface recoloring aspects by colorblind people: a user study},
  author={de Ara{\'u}jo, Ricardo Jos{\'e} and Dos Reis, Julio Cesar and Bonacin, Rodrigo},
  journal={Universal Access in the Information Society},
  pages={1--18},
  year={2018},
  publisher={Springer}
}


                    	

                        	
@conference{gonçalves2018e,
  author={Fabrício Matheus Gon\c{C}alves. and Felipe Rodrigues Jensen. and Julio Cesar dos Reis. and Maria Cecília Calani Baranauskas.},
  title={Enhancing Problem Clarification Artifacts with Online Deliberation},
  booktitle={Proceedings of the 13th International Conference on Software Technologies - Volume 1: ICSOFT,},
  year={2018},
  pages={288-295},
  publisher={SciTePress},
  organization={INSTICC},
  doi={10.5220/0006869103220329},
  isbn={978-989-758-320-9}
}


                    	

                        	
@inproceedings{dosReis2018t,
 author = {Julio Cesar dos Reis and Mario de Brito},
 title = {Transparência para Humanos e Máquinas: Um framework para Publicar Dados Abertos Interconectados Semanticamente Descritos},
 booktitle = {Anais do VI Workshop de Transparência em Sistemas},
 location = {Natal},
 year = {2018},
 keywords = {},
 issn = {2595-6140},
 publisher = {SBC},
 address = {Porto Alegre, RS, Brasil}
 doi = {10.5753/wtrans.2018.3094},
 url = {https://portaldeconteudo.sbc.org.br/index.php/wtrans/article/view/3094}
}


                    	

                        	
@inproceedings{deFrança2018d,
 author = {Breno Bernard Nicolau de França and Julio Cesar dos Reis and Rodolfo Jardim de Azevedo},
 title = {Desafios Sociotécnicos e Prospecções para Promover Transparência de Dados na Universidade},
 booktitle = {Anais do VI Workshop de Transparência em Sistemas},
 location = {Natal},
 year = {2018},
 keywords = {},
 issn = {2595-6140},
 publisher = {SBC},
 address = {Porto Alegre, RS, Brasil},
 doi = {10.5753/wtrans.2018.3091},
 url = {https://portaldeconteudo.sbc.org.br/index.php/wtrans/article/view/3091}
}



                    	

                        	
@article{dosReis2018d,
    author = {dos Reis, Julio Cesar and Bonacin, Rodrigo and Jensen, Cristiane Josely and Hornung, Heiko Horst and Baranauskas, Maria Cecília Calani},
    title = "{Design of Interactive Mechanisms to Support the Communication of Users’ Intentions}",
    journal = {Interacting with Computers},
    volume = {30},
    number = {4},
    pages = {315-335},
    year = {2018},
    month = {07},
    abstract = "{The communication and interpretation of users’ intentions play a key role in collaborative web discussions. However, existing computational mechanisms are not effective in supporting the expression of intentions during collaborations. In this article, we present the design of interactive mechanisms that allow users to make their intentions explicit. The study considered the domain of collaborative forums of software developers. The mechanisms design was based on semiotic principles and artifacts. They were implemented and evaluated to assess their effectiveness. We investigated to which extent the mechanisms support users in the task of interpreting message exchanges in forums that make use of the mechanisms. The results reveal the suitability of the designed interface elements, enabling more meaningful and successful communication.}",
    issn = {0953-5438},
    doi = {10.1093/iwc/iwy013},
    url = {https://doi.org/10.1093/iwc/iwy013},
    eprint = {https://academic.oup.com/iwc/article-pdf/30/4/315/25243814/iwy013.pdf},
}


                    	

                        	
@InProceedings{bonacin2018m,
  author="Bonacin, Rodrigo
  and Calado, Ivo
  and dos Reis, Julio Cesar",
  editor="Liu, Kecheng
  and Nakata, Keiichi
  and Li, Weizi
  and Baranauskas, Cecilia",
  title="A Metamodel for Supporting Interoperability in Heterogeneous Ontology Networks",
  booktitle="Digitalisation, Innovation, and Transformation",
  year="2018",
  publisher="Springer International Publishing",
  address="Cham",
  pages="187--196",
  abstract="Ontologies are central artifacts in modern information systems. Ontology networks consider the coexistence of different ontology models in the same conceptual space. It is relevant that computational systems specified with distinct models based on different methods, as well as divergent metaphysical assumptions, exchange data to interoperate one with the other. However, there is a lack of techniques to enable the adequate conciliation among models. In this paper, we propose and formalize a metamodel to enable the construction of data models aiming to support the interoperability at the technical level. We present the use of our metamodel to conciliate, without explicit transformations, Ontology Charts from Organizational Semiotics with Semantic Web OWL ontologies and less structured models such as soft ontologies. Our results indicate the possibility of identifying an entity from one model into another, enabling data exchange and interpretation in heterogeneous ontology network.",
  isbn="978-3-319-94541-5"
}



                    	

                        	
@article{bonacin2018e,
  author={BONACIN,Rodrigo and DOS REIS,Julio Cesar and Edemar,MENDES P. and NABUCO,Olga},
  year={2018},
  title={Exploring intentions on electronic health records retrieval. Studies with collaborative scenarios},
  journal={Ingenierie des Systemes d'Information},
  volume={23},
  number={2},
  pages={111-135},
  note={Copyright - Copyright Lavoisier 2018; Última atualização em - 2019-01-15},
  abstract={Indépendamment des aspects positifs apportés par les dossiers médicaux partagés (DMP) informatisés, les professionnels de santé sont confrontés à des difficultés dans la sélection des documents pertinents, surtout dans la cadre des grandes bases de données lors des activités de collaboration. Dans le cadre de cet article, nous nous sommes appuyés sur le développement d’un mécanisme innovant de Recherche d’Information (RI) qui explore la représentation formelle des intentions dans les DMP. Cette recherche repose sur la théorie organisationnelle de la sémiotique et de la théorie des actes de langage afin de catégoriser plusieurs types d’intentions. Notre étude porte sur des problèmes de définition, sélection et classement des résultats de recherche et nous examinons les intentions explicitement déclarées par les utilisateurs. Notre principale contribution est le développement d’un système RI qui vient en appui au partage des connaissances de groupe via DMP. Pour évaluer cette proposition, nous avons mené une étude expérimentale d’après un référentiel DMP réel de dossiers médicaux. Deux scénarios sont définis qui impliquent un groupe interdisciplinaire de professionnels de santé. Les résultats obtenus sont analysés à partir de mesures comme la précision et le rappel et ont démontré l’efficacité de cette solution. Despite the potential benefits of Electronic Health Records (EHRs), health care pro fessionals face difficulties in the selection of relevant documents in huge repositories during collaborative activities. In this article, we investigate the development of an innovative Information Retrieval (IR) and sharing mechanism that explores the formal representation of inten- tions in EHRs. To this end, this research relies on Organizational Semiotics and Speech Acts Theory. We defined an algorithm to filter and sort search results relying on intention classes explicitly declared as query parameters in the search mechanism. As our main contribution, we developed the SiRBI IR system for supporting group knowledge sharing through EHRs. To evaluate the proposal, we conducted an experimental study using a realworld EHR repository in two search scenarios, which involve an interdisciplinary group. The obtained results demonstrated the effectiveness of the solution.},
  keywords={Engineering; récupération de l’information; dossier médical électronique; expansion de requêtes; les intentions; la théorie des actes de langage; information retrieval; electronic health records; information sharing; query expansion; intentions; illocutions; speech acts theory; Repositories; Collaboration; Searching},
  isbn={16331311},
  language={English},
  url={http://www.iieta.org/journals/isi/paper/10.3166/ISI.23.2.111-135}
}


                    	

                        	
@conference{Carvalho2017b,
 abstract = {Workflow systems support scientists in capturing computational experiments and managing their execution.  However, such systems are not designed to help scientists create and track the many related workflows that they build as variants, trying different software implementations and distinct ways to process data and deciding what to do next by looking at previous workflow results.  An initial workflow will be changed to create many new variants thereof that differ from each other in one or more steps. Our goal is to support scientists in the iterative design of computational experiments by assisting them in the creation and management of workflow variants.  In this paper, we present several use cases for creating workflow variants in hydrology, from which we specify requirements for workflow variants.  We also discuss major research directions to address these requirements.},
 author = {Lucas A. M. C. Carvalho and Bakinam T. Essawy and Daniel Garijo and Claudia Bauzer Medeiros and Yolanda Gil},
 booktitle = {2017 Workshop on Capturing Scientific Knowledge (SciKnow), held in conjunction with the ACM International Conference on Knowledge Capture (K-CAP)},
 date = {2017-12-04},
 keyword = {Knowledge Capture, Scientific Workflows, Workflow Variants, Workshop},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2018/01/workflow-variants-sciknow-2017-camera-ready.pdf},
 pages = {1-8},
 title = {Requirements for Supporting the Iterative Exploration of Scientific Workflow Variants},
 year = {2017}
}


                    	

                        	
@conference{Santo2017,
 abstract = {The interoperability of clinical information systems is particularly complicated due to the use of outdated technologies and the absence of consensus about standards. The literature applies standard-based approaches to achieve clinical data interoperability, but many systems do not adopt any standard, requiring a full redesigning process. Instead, we propose a generic computational approach that combines a hierarchical organization of mediator schemas to support the interoperability across distinct data sources. Second, our work takes advantage of knowledge bases to be linked to clinical data, and exploit these semantic linkages via queries. The paper shows case studies to validate our
proposal.},
 address = {Luxemburgo, Luxemburgo},
 author = {Jacqueline Midlej do Espírito Santo and Claudia Bauzer Medeiros},
 booktitle = {Lecture Notes in Bioinformatics (LNBI) - Proceedings of 12th International Conference on Data Integration in the Life Sciences},
 date = {2017-11-14},
 editor = {Springer International Publishing AG},
 keyword = {Data integration, healthcare},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2017/10/DILS-jacqueline.pdf},
 title = {Semantic Interoperability of Clinical Data},
 volume = {10649},
 year = {2017}
}


                    	

                        	
@inproceedings{moreira2017t,
	author = {Moreira, Eliana Alves and dos Reis, Julio Cesar and Baranauskas, M. Cec\'{\i}lia C.},
	title = {TangiSAM: Tangible Artifacts for Evaluation of Affective States},
	year = {2017},
	isbn = {9781450363778},
	publisher = {Association for Computing Machinery},
	address = {New York, NY, USA},
	url = {https://doi.org/10.1145/3160504.3160525},
	doi = {10.1145/3160504.3160525},
	booktitle = {Proceedings of the XVI Brazilian Symposium on Human Factors in Computing Systems},
	articleno = {47},
	numpages = {10},
	keywords = {Tangible interfaces, Affective states, Evaluation},
	location = {Joinville, Brazil},
	series = {IHC 2017}
}


                    	

                        	
@conference{Diaz2017,
 abstract = {Scientific datasets, and the experiments that analyze them are growing in size and complexity, and scientists are facing difficulties to share such resources. Some initiatives have emerged to try to solve this problem. One of them involves the use of scientific workflows to represent and enact experiment execution. There is an increasing number of workflows that are potentially relevant for more than one scientific domain. However, it is hard to find workflows suitable for reuse given an experiment. Creating a workflow takes time and resources, and their reuse helps scientists to build new workflows faster and in a more reliable way. Search mechanisms in workflow repositories should provide different options for workflow discovery, but it is difficult for generic repositories to provide multiple mechanisms. This paper presents WorkflowHunt, a hybrid architecture for workflow search and discovery for generic repositories, which combines keyword and semantic search to allow finding relevant workflows using different search methods. We validated our architecture creating a prototype that uses real workflows and metadata from myExperiment, and compare search results via WorkflowHunt and via myExperiment’s search interface.},
 address = {Auckland, New Zealand},
 author = {Juan S. B. Diaz and Claudia Bauzer Medeiros},
 booktitle = {Proceedings of the IEEE 13th International Conference on eScience 2017},
 date = {2017-10-24},
 keyword = {Scientific Workflows, Semantic Annotation, Workflow Retrieval},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2017/10/PID4958635.pdf},
 publisher = {IEEE},
 title = {WorkflowHunt: combining keyword and semantic search in scientific workflow repositories},
 year = {2017}
}


                    	

                        	
@conference{deSaraiva2017,
 abstract = {The Web is witnessing an exponential growth of distributed and heterogeneous educational material. This hampers distinguishing among contents of these materials, as well as their retrieval. While information retrieval and classification mechanisms concentrate on corpus analysis, annotation approaches either target specific formats or require that a document follows interoperable standards. Rather than target only textual characteristics, our strategy is mainly based on components of educational material. The header, body, footer and numbering of slides and progress bar are examples of components of slides and videos. Though our work is general purpose, it is being tested against slides and videos from Coursera, a web platform that provides universal access to online education material and courses from universities and organizations around the world.},
 address = {Indianapolis, Indiana, USA},
 author = {Márcio de Carvalho Saraiva and Claudia Bauzer Medeiros},
 booktitle = {Proceedings of THE 47th Annual Frontiers in Education (FIE) Conference, October 18-21, 2017},
 date = {2017-10-17},
 keyword = {Components, Content analysis and feature selection, educational material, Information extraction, Topics Classification},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2017/07/ArtigoFIE2017-MarcioSaraiva.pdf},
 organization = {IEEE},
 title = {Finding out Topics in Educational Materials Using their Components},
 year = {2017}
}


                    	

                        	
@phdthesis{Daltio2017,
 abstract = {Scientific research has become data-intensive and data-dependent. This new research paradigm requires sophisticated computer science techniques and technologies to support the life cycle of scientific data and collaboration among scientists from distinct areas. A major requirement is that researchers working in data-intensive interdisciplinary teams demand construction of multiple perspectives of the world, built over the same datasets. Present solutions cover a wide range of aspects, from the design of interoperability standards to the use of non-relational database management systems. None of these efforts, however, adequately meet the needs of multiple perspectives, which are called foci in the thesis. Basically, a focus is designed/built to cater to a research group (even within a single project) that needs to deal with a subset of data of interest, under multiple aggregation/generalization levels. The definition and creation of a focus are complex tasks that require mechanisms and engines to manipulate multiple representations of the same real world phenomenon. This PhD research aims to provide multiple foci over heterogeneous data. To meet this challenge, we deal with four research problems. The first two were (1) choosing an appropriate data management paradigm; and (2) eliciting multifocus requirements. Our work towards solving these problems made as choose graph databases to answer (1) and the concept of views in relational databases for (2). However, there is no consensual data model for graph databases and views are seldom discussed in this context. Thus, research problems (3) and (4) are: (3) specifying an adequate graph data model and (4) defining a framework to handle views on graph databases. Our research in these problems results in the main contributions of this thesis: (i) to present the case for the use of graph databases in multifocus research as persistence layer -- a schemaless and relationship driven type of database that provides a full understanding of data connections; (ii) to define views for graph databases to support the need for multiple foci, considering graph data manipulation, graph algorithms and traversal tasks; (iii) to propose a property graph data model (PGDM) to fill the gap of absence of a full-fledged data model for graphs; (iv) to specify and implement a framework, named Graph-Kaleidoscope, that supports views over graph databases and (v) to validate our framework for real world applications in two domains -- biodiversity and environmental resources -- typical examples of multidisciplinary research that involve the analysis of interactions of phenomena using heterogeneous data.},
 author = {Jaudete Daltio},
 date = {2017-09-12},
 keyword = {graph database; PhDThesis; Views; Multifocus},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2017/12/jaudete_daltio_tese.pdf},
 school = {University of Campinas - Institute of Computing},
 title = {Views over Graph Databases: A Multifocus Approach for Heterogeneous Data},
 year = {2017}
}


                    	

                        	
@inproceedings{destro2017e,
  title={Experimental studies for revealing key factors of cross-language ontology alignments},
  author={Destro, Juliana Medeiros and dos Reis, Julio Cesar and Carvalho, Ariadne Maria Brito Rizzoni and Ricarte, Ivan Luiz Marques},
  booktitle={Brazilian Ontology Research Seminar (ONTOBRAS 2017)},
  year={2017}
}


                    	

                        	
@INPROCEEDINGS{dosReis2017r,
  author={J. C. {Dos Reis} and R. {Bonacin} and M. C. {Calani Baranauskas}},
  booktitle={2017 IEEE 26th International Conference on Enabling Technologies: Infrastructure for Collaborative Enterprises (WETICE)}, 
  title={Recognizing Intentions in Free Text Messages: Studies with Portuguese Language}, 
  year={2017},
  volume={},
  number={},
  pages={302-307}
}


                    	

                        	
@conference{Tacioli2017,
 abstract = {Automatic identification of animals is extremely useful for scientists, providing ways to monitor species and changes in ecological communities. The choice of effective audio features and classification techniques is a challenge on any audio recognition system, especially in bioacoustics that commonly uses several algorithms. This paper presents a novel software architecture that supports multiple feature extraction and classification algorithms to help on the identification of animal species from their recorded sounds. This architecture was implemented by the WASIS software, freely available on the Web.},
 author = {Leandro Tacioli and Luís Felipe Toledo and Claudia Bauzer Medeiros},
 booktitle = {11th BreSci - Brazilian e-Science Workshop},
 date = {2017-07-06},
 keyword = {eScience, Feature Extraction, Pattern recognition},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2017/06/Tacioli-BreSci2017.pdf},
 publisher = {Sociedade Brasileira de Computação (SBC)},
 title = {An Architecture for Animal Sound Identification based on Multiple Feature Extraction and Classification Algorithms},
 year = {2017}
}


                    	

                        	
@conference{Carvalho2017,
 abstract = {An open problem in scientific community is that of supporting reproducibility and quality assessment of scientific experiments. Solutions need to
be able to help scientists to reproduce experimental procedures in a reliable manner and, at the same time, to provide mechanisms for documenting the experiments to enhance integrity and transparency. Moreover, solutions need to incorporate features that allow the assessment of procedures, data used and results of those experiments. In this context, we designed W2Share, a framework to meet these requirements. This paper introduces our first implementation of W2Share, which moreover guides scientists in step-by-step process to ensure reproducibility based on a script-to-workflow conversion strategy. W2Share also incorporates features that allow annotating experiments with quality information. We validate our prototype using a real-world scenario in Bioinformatics.},
 author = {Lucas A. M. C. Carvalho and Joana E. Gonzales Malaverri and Claudia Bauzer Medeiros},
 booktitle = {11th BreSci - Brazilian e-Science Workshop},
 date = {2017-07-06},
 keyword = {Data quality, Provenance Information, Scientific Workflows, Semantic Annotation, W2Share framework},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2017/05/w2share-bresci2017-camera-ready.pdf},
 pages = {1-8},
 publisher = {Sociedade Brasileira de Computação (SBC)},
 title = {Implementing W2Share: Supporting Reproducibility and Quality Assessment in eScience},
 year = {2017}
}


                    	

                        	
@mastersthesis{Tacioli2017b,
 abstract = {Automatic identification of animal species based on their sounds is one of the means to conduct research in bioacoustics. This research domain provides, for instance, ways to monitor rare and endangered species, to analyze changes in ecological communities, or ways to study the social meaning of animal calls in their behavioral contexts. Identification mechanisms are typically executed in two stages: feature extraction and classification. Both stages present challenges, in computer science and in bioacoustics. The choice of effective feature extraction and classification algorithms is a challenge on any audio recognition system, especially in bioacoustics. Considering the wide variety of animal groups studied, algorithms are tailored to specific groups. Audio classification techniques are also sensitive to the extracted features, and conditions surrounding the recordings. As a results, most bioacoustic softwares are not extensible, therefore limiting the kinds of recognition experiments that can be conducted. Given this scenario, this dissertation proposes a software architecture that allows multiple feature extraction, feature fusion and classification algorithms to support scientists and the general public on the identification of animal species through their recorded sounds. This architecture was implemented by the WASIS software, freely available on the Web. Since WASIS is open-source and expansible, experts can perform experiments with many combinations of pairs descriptor-classifier to choose the most appropriate ones for the identification of given animal sub-groups. A number of algorithms were implemented, serving as the basis for a comparative study that recommends sets of feature extraction and classification algorithms for three animal groups.},
 author = {Leandro Tacioli},
 date = {2017-07-03},
 keyword = {Animals - Identification, Bioacoustics, Computer systems, Pattern recognition},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2017/07/LeandroTacioli-Mestrado.pdf},
 school = {Universidade Estadual de Campinas - UNICAMP},
 title = {WASIS - Bioacoustic Species Identification based on Multiple Feature Extraction and Classification Algorithms},
 year = {2017}
}


                    	

                        	
@InProceedings{dosReis2017p,
	author="Dos Reis, Julio Cesar
	and Jensen, Cristiane Josely 
	and Bonacin, Rodrigo
	and Hornung, Heiko
	and Calani Baranauskas, Maria Cec{\'i}lia",
	editor="Hammoudi, Slimane
	and Maciaszek, Leszek A.
	and Missikoff, Michele M.
	and Camp, Olivier
	and Cordeiro, Jos{\'e}",
	title="Participatory Icons Specification for Expressing Intentions in Computer-Mediated Communications",
	booktitle="Enterprise Information Systems",
	year="2017",
	publisher="Springer International Publishing",
	address="Cham",
	pages="414--435",
	abstract="Web-mediated conversations require treating intentions more explicitly. Literature lacks adequate design methods and interactive mechanisms to support users in the sharing of intentions. This research assumes that icons representing emotions play a central role as means for aiding users to convey intentions in communication tasks. This article proposes a method to specify emoticons for representing the users' intentions, named ``intenticons''. The work explores Speech Act Theory and Semiotics in a conceptual framework to structure classes of intentions. We conduct participatory activities to experiment the method with 40 users. The obtained intenticons were evaluated with a different set of users to reveal their effectiveness. The obtained results suggest the feasibility of the method to select and enhance emoticons for intention expression. Evaluations point out that most of the achieved intenticons indicate an acceptable degree of representativeness for the intention classes.",
	isbn="978-3-319-62386-3"
}


                    	

                        	
@mastersthesis{NardiFilho2017,
 abstract = {Software for medical training usually follows two types of approaches for the representation of its data. One type is the software of simulation-based training or virtual patients - which have highly structured representations of the clinical data and simulation plans. Another type is some systems which focus on the narrative of a clinical case in free-text format - e.g., the Jacinto emergency medicine learning environment. In this case, the clinical data mixes with the narrative in unstructured format. Thus, we propose a model for a hybrid narrative and clinical knowledge base for emergency medicine training that combines both of the approaches. We hypothesize that by connecting narratives with structured clinical information, we can take advantage of the strongest points of each approach. On the one hand, structured clinical data offers flexibility for the production of case variations and alternative plans, which gives machine more autonomy to assess user performance. On the other hand, free-text narratives enable the introduction of real scenario relevant aspects and context, beyond clinical data. In this work, we present a practical experiment involving the database of the Jacinto emergency medicine learning environment.},
 author = {Francisco José Nardi Filho},
 date = {2017-05-19},
 keyword = {Artificial intelligence - Medical applications, Emergency medicine, Expert systems (Computer science), Information storage and retrieval systems, Information systems},
 link = {http://www.repositorio.unicamp.br/bitstream/REPOSIP/325067/1/Nardi%20Filho_FranciscoJose_M.pdf},
 school = {Universidade Estadual de Campinas - UNICAMP},
 title = {Hybrid Narrative and Clinical Knowledge Base for Emergency Medicine Training},
 year = {2017}
}


                    	

                        	
@ARTICLE{deAraujo2017333,
  author={de Araújo, R.J. and dos Reis, J.C. and Bonacin, R.},
  title={Colors similarity computation for user interface adaptation},
  journal={Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)},
  year={2017},
  volume={10277 LNCS},
  pages={333-345},
  doi={10.1007/978-3-319-58706-6_27},
  url={https://www.scopus.com/inward/record.uri?eid=2-s2.0-85025145600&doi=10.1007%2f978-3-319-58706-6_27&partnerID=40&md5=69b24b51ec60b56bc0da373c245d0f5f},
  abstract={Color blind people face various difficulties interacting with web systems. Interface adaptation techniques designed to recoloring images and web interfaces may deal with several color blindness visualization issues. However, different situations, preferences and individual needs make complex choosing the most suitable recoloring technique. This article proposes an original algorithm to compute similarity between colors. We aim to support the decision process of select the most suitable adaptation technique according to the type of color blindness and interaction context. The algorithm ponders arguments for taking the users’ preferences and limitations into account. Our experimental analysis implement various configurations by testing the weights in the color distance calculation according to the colorblindness type. The obtained results reveal the advantages of considering the type of colorblindness in the color similarity computation. © Springer International Publishing AG 2017.},
  author_keywords={Accessibility;  Color blindness;  Color similarity;  Interface adaptation},
  sponsors={},
  publisher={Springer Verlag},
  document_type={Conference Paper},
  source={Scopus},
}


                    	

                        	
@ARTICLE{Gonçalves201791,
  author={Gonçalves, F.M. and Duarte, E.F. and Dos Reis, J.C. and Baranauskas, M.C.C.},
  title={An analysis of online discussion platforms for academic deliberation support},
  journal={Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)},
  year={2017},
  volume={10283 LNCS},
  pages={91-109},
  doi={10.1007/978-3-319-58562-8_8},
  url={https://www.scopus.com/inward/record.uri?eid=2-s2.0-85025124946&doi=10.1007%2f978-3-319-58562-8_8&partnerID=40&md5=65d4ad5eb5570cd951773bc6d72565ca},
  abstract={Asynchronous online discussions are relevant for supporting and promoting debates among people. Nevertheless, achieving beneficial discussion requires adequate software applications with specific features to support people’s participation, e.g., mechanisms for structured pros and cons arguments. Although literature is vast in discussing online forums usage, requirements for the design of platforms for academic deliberation has not been addressed in the same proportion. In this paper, we analyze three online discussion platforms for deliberation. We conduct a structural analysis regarding their interaction concepts and, based on activities of graduate students attending a Human-Computer Interaction discipline, this study conducts a usage analysis of the platforms. Results reveal the level of participants’ engagement in academic discussions and the effects on their learning perception. Moreover, results expose the impact of software design choices in the deliberation outcome. © Springer International Publishing AG 2017.},
  author_keywords={Academic deliberation;  Collaboration;  Considerate;  Debate hub;  HCI;  Interaction design;  Social computing;  Trello},
  sponsors={},
  publisher={Springer Verlag},
  document_type={Conference Paper},
  source={Scopus},
}


                    	

                        	
@inproceedings{destro2017i,
  author = {Destro, Juliana Medeiros and Reis, Julio Cesar dos and Brito, Ariadne Maria and Carvalho, Rizzoni and Ricarte, Ivan Luiz Marques},
  title = {Influence of Semantic Similarity Measures on Ontology Cross-Language Mappings},
  year = {2017},
  isbn = {9781450344869},
  publisher = {Association for Computing Machinery},
  address = {New York, NY, USA},
  url = {https://doi.org/10.1145/3019612.3019836},
  doi = {10.1145/3019612.3019836},
  booktitle = {Proceedings of the Symposium on Applied Computing},
  pages = {323–329},
  numpages = {7},
  keywords = {biomedical ontologies, cross-language matching, semantic similarity, ontologies, ontology mapping},
  location = {Marrakech, Morocco},
  series = {SAC ’17}
}


                    	

                        	
@conference{Pantoja,
 address = {Baltimore, MD, USA},
 author = {Fagner L. Pantoja and Patrícia Cavoto and Julio Cesar dos Reis and André Santanchè},
 booktitle = {Proceedings of the 12th International Conference on eScience},
 date = {2016-10-24},
 keyword = {Curation},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2016/12/1095anav.pdf},
 organization = {IEEE,},
 title = {Generating Knowledge Networks from Phenotypic Descriptions},
 year = {2016}
}


                    	

                        	
@conference{Carvalho2016Converting,
 abstract = {Scientific discovery and analysis are increasingly computational and data-driven. While scripting languages, such as Python, R and Perl, are the means of choice of the majority of scientists to encode and run their data analysis, scripts are generally not amenable to reuse or reproducibility. Scripts do rarely get reused or even shared with third party scientists. We argue in this paper that the reproducibility of scripts can be promoted by converting them into workflow research objects. A workflow research object encodes a script into a production (executable) workflow that is accompanied by annotations, example datasets and provenance traces of their execution, thereby allowing third party users to understand the data analysis encoded by the original script, run the associated workflow using the same or different dataset, or even repurpose it for a different analysis. To this end, we present a methodology for converting scripts into workflow research objects in a principled manner, guided by requirements that we elicited for this purpose. The methodology  exploits tools and standards that have been developed by the community, in particular YesWorkflow, Research Objects and the W3C PROV. It is showcased using a real world use case from the field of Molecular Dynamics.},
 address = {Baltimore, MD, USA, October 23-27},
 author = {Lucas A. M. C. Carvalho and Khalid Belhajjame and Claudia Bauzer Medeiros},
 booktitle = {Proceedings of the 2016 IEEE 12th International Conference on eScience},
 date = {2016-10-23},
 keyword = {Methodology, Provenance Information, Scientific Workflows},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2016/08/converting-scripts-reproducible-camera-ready.pdf},
 publisher = {IEEE},
 title = {Converting Scripts into Reproducible Workflow Research Objects},
 year = {2016}
}


                    	

                        	
@conference{Saraiva2016Short,
 abstract = {The search for educational content in courseware repositories is  laborious and time consuming. There is an abundance of such repositories, and research efforts to facilitate search, but access is guided by keywords and/or terms selected by courseware authors, thus lacking flexibility. The goal of this project is to design and develop a suite of tools to assist users to find, analyze and select pieces of educational content that are relevant to their learning goals. Contributions will be both at the algorithm and software design level, and at the user (application) level.},
 address = {Salvador, Bahia, Brazil, October 4-7},
 author = {Márcio de Carvalho Saraiva and Claudia Bauzer Medeiros},
 booktitle = {Proceedings of the 31st Brazilian Symposium on Databases},
 date = {2016-10-04},
 issn = {2316-5170},
 keyword = {content analysis, educational material, graph database, multiple relationships},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2017/01/marciosaraiva-sbbd2016.pdf},
 organization = {Sociedade Brasileira de Computação},
 pages = {265-270},
 title = {Use of graphs and taxonomic classifications to analyze content relationships among courseware},
 year = {2016}
}


                    	

                        	
@conference{Carvalho2016Wtd,
 abstract = {One recurrent problem in multidisciplinary research is finding reusable objects (e.g., scripts, code, documents, workflows) that can be used across disciplines to enhance collaboration.
This paper presents our ongoing work taking advantage of provenance information, combined with scientific workflows, to help find such objects. We also present challenges posed by provenance-based retrieval, which we propose as a solution for transdisciplinary scientific collaboration via reuse.
Our case study in molecular dynamics experiments is part of a larger multi-scale experimental scenario that requires cooperation involving scientists from different disciplines.},
 address = {Salvador, Bahia, Brazil, October 4-7},
 author = {Lucas A. M. C. Carvalho and Claudia Bauzer Medeiros},
 booktitle = {Proceedings of the Satellite Events of the 31st Brazilian Symposium on Databases (Thesis and Dissertations Workshop)},
 date = {2016-10-04},
 isbn = {978-85-7669-343-7},
 keyword = {Provenance Information, Scientific Workflows, Semantic Annotation, Workflow Retrieval},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2017/01/wtdbd2016-camera-ready.pdf},
 organization = {Sociedade Brasileira de Computação},
 pages = {74-81},
 title = {Provenance-Based Infrastructure to Support Reuse of Computational Experiments},
 year = {2016}
}


                    	

                        	
@mastersthesis{Pantoja2016,
 author = {Fagner Leal Pantoja},
 date = {2016-08-05},
 keyword = {Curation},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2016/12/fagner-dissertacao-vfinal.pdf},
 school = {University of Campinas},
 title = {Generating Knowledge Networks from Phenotypic Descriptions},
 year = {2016}
}


                    	

                        	
@mastersthesis{Borges2016,
 abstract = {Representing data as networks have been shown to be a powerful approach for data analysis in biodiversity, e.g., interactions among organisms; relations among genes and phenotypes etc. In this context, databases and repositories following a graph model (e.g., RDF) have been increasingly used to interconnect information and to support network-driven analysis. Usually, this kind of analysis requires gathering together and linking data from several distinct and heterogeneous sources. In this work, we investigate this challenge in the context of biological bases focusing on the characterization of living organisms, especially their phenotypes and diseases. It includes the rich diversity of Model Organism Databases (MODs) -- repositories specialized in a particular taxon -- widely used in the biological and medical studies. We exploit a lightweight integration approach, inspired in the Linked Open Data initiative, mapping several biological bases in a unified graph database -- our BioGraph -- and linking key elements to offer an interconnected view over the data. We present here practical experiments to validate the proposal and to show how BioGraph can contribute for biological data analysis in a network perspective.},
 author = {Luana Loubet Borges},
 date = {2016-08-05},
 keyword = {database, Ontologies (Information retrieval)},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2016/10/dissertacao_versao_final_Luana_Loubet.pdf},
 school = {Universidade Estadual de Campinas - UNICAMP},
 title = {BioGraph: Linking Biological Bases Across Organisms},
 year = {2016}
}


                    	

                        	
@conference{Carvalho2016,
 abstract = {When computational researchers from several domains cooperate, one recurrent problem is finding tools, methods and approaches that can be used across disciplines, to enhance collaboration through reuse. The
paper presents our ongoing work to meet the challenges posed by provenance-based retrieval, proposed as
a solution for transdisciplinary scientific collaboration via reuse of scientific workflows. Our work is based
upon a case study in molecular dynamics experiments, as part of a larger multi-scale experimental
scenario.},
 address = {McLean, Virginia, U.S.A.},
 author = {Lucas A. M. C. Carvalho and Rodrigo L. Silveira and Caroline S. Pereira and Munir S. Skaf and Claudia Bauzer Medeiros},
 booktitle = {Provenance and Annotation of Data and Processes (Proceedings of 6th International Provenance and Annotation Workshop - IPAW 2016)},
 chapter = {17},
 date = {2016-06-06},
 editor = {Marta Mattoso and Boris Glavic},
 isbn = {978-3319405926},
 keyword = {Provenance Information, Scientific Workflows, Semantic Annotation, Workflow Retrieval},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2016/05/ipaw2016-poster-cameraready.pdf},
 pages = {1-4},
 publisher = {Springer International Publishing},
 series = {LNCS 9672},
 title = {Provenance-Based Retrieval: Fostering Reuse and Reproducibility Across Scientific Disciplines},
 year = {2016}
}


                    	

                        	
@article{linkedscalesjidm,
 abstract = {Biologists increasingly need a unified view to understand and discover relationships among data elements scattered along data sources with different levels of heterogeneity. Existing approaches usually adopt ad-hoc heavyweight integration strategies, requiring a costly upfront effort involving a monolithic chain of steps to handle specific formats/schemas, with low or no reuse. This article proposes the conception of a multiscale-based dataspace architecture, called LinkedScales. It departs from the notion of integration-scales within a dataspace, and defines a systematic and progressive integration process via graph-based transformations over a graph database. LinkedScales aims to provide a homogeneous view of heterogeneous sources, allowing systems to reach and produce different integration levels on demand, going from raw representations (lower scales) towards ontology-like structures (higher scales). We describe inner aspects of the architecture and its transformation process by introducing the Multiscale Transformation Graph, which tracks the transformation process among scales.
Although the proposed framework can be applied to several scenarios, this work focuses on the biology domain addressing the organism-centric analysis scenario. Obtained results reveal the viability of the framework and its implementation to integrate relevant resources for the organism-centric scenario.},
 author = {Matheus Silva Mota and Julio Cesar dos Reis and Sandra Goutte and André Santanchè},
 date = {2016-05-01},
 journal = {Journal of Information and Data Management - JIDM},
 keyword = {Journal Paper},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2016/10/multiscaling-graph-based.pdf},
 pages = {16},
 title = {Multiscaling a Graph-based Dataspace [accepted]},
 year = {2016}
}


                    	

                        	
@mastersthesis{goncalves2016design,
 abstract = {In formal learning contexts, there is a diversity of interests and skills than need to have space in the interaction between those involved in the production and sharing of knowledge. Active Learning refers to a set of strategies through which the participation of key actors in the educational environment goes beyond the unidirectional expository/receptive model of knowledge, involving activities where discussion and collaboration with others have an important role in reflection and construction of meaning. Computer systems that support the learning processes have not been designed for the diversity of skills and demands present in such environments. In this thesis we argue that if we want to develop solutions that make sense to stakeholders and suited to the complexity that characterizes Active Learning scenarios, we need to include them in the design cycle. In this paper we adopt a perspective based on Organizational Semiotics for analysis of Active Learning scenarios and propose a systemic vision for the interaction design in such environments, including motivational aspects. Work results include: a cyclical design process than we call "on the fly design", and a system for collaborative authoring and review of Active Learning activities. This process has been experimented on incremental construction of the system which, in turn, has been experimented in a real context of higher education. The system was evaluated iteratively, based on feedback from stakeholders in the situated context, feeding back the characterization of the process. The process was effective in building an emerging system for supporting the collaboration and participation of those involved in the experimented Active Learning scenarios.},
 author = {Fabrício Matheus Gonçalves},
 date = {2016-02-04},
 keyword = {Active learning, Agile software development, Autonomy, Interação humano-computador, Peer instruction, Peer teaching Self-determination (Psychology), Semiótica organizacional},
 link = {http://www.reposip.unicamp.br/xmlui/bitstream/handle/REPOSIP/305633/Goncalves%2c%20Fabricio%20Matheus_M.pd?sequence=1&isAllowed=y},
 school = {University of Campinas - Unicamp},
 title = {Design de interação em sistemas computacionais para apoio à aprendizagem ativa: uma abordagem sistêmica},
 year = {2016}
}


                    	

                        	
@mastersthesis{Cavoto2016,
 abstract = {Networks are everywhere. From social interactions: family, friends, hobbies; passing through computer science: computers on the Internet; to nature: as food chains. Recent research shows the importance of links and network analysis to discover knowledge in existing data. Moreover, the Linked Open Data and Semantic Web efforts empowered the fast growth of open knowledge repositories on the web, mainly in the RDF (Resource Description Framework) graph model. However, a lot of data are stored in relational databases, whose model has not been designed to address queries with many transitive relations. On the other hand, the flexible graph model is suitable for data analysis focusing on links, their transitivity and the network topology, e.g., a connected component analysis. Therefore, our research is inspired by the data OLAP (OnLine Analytical Processing) approach of creating a special database designed for data analysis, a network-driven data analysis, using graph databases. In this dissertation, we present ReGraph, a framework to map data from a relational to a graph database, managing a dynamic coexistence and evolution of both, not supported by related work. ReGraph has minimum impact on the existing infrastructure, providing a flexible and tailored graph model for each relational schema. It uses an initial ETL (Extract, Transform and Load) process to replicate the existing data in the graph database. A scheduled service is responsible for automatically reflecting changes in the relational data into the graph, keeping both synchronized. ReGraph also provides an annotation functionality to materialize inferences and to support data enrichment, which enables linking the local database to global knowledge graphs on the Web. We have used the ReGraph framework to generate FishGraph, a graph database created from the FishBase relational database. Using FishGraph we developed experiments to analyze the connections among thousands of identification keys and species, and we have linked local data to DBpedia, creating annotations over the local graph and providing new knowledge from existing data.},
 author = {Patrícia Cavoto},
 date = {2016-02-04},
 keyword = {Databases, Ontologies (Information retrieval), Software development - Databases},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2016/05/Cavoto2016.pdf},
 school = {Universidade Estadual de Campinas - UNICAMP},
 title = {ReGraph : Bridging Relational and Graph Databases},
 year = {2016}
}


                    	

                        	
@conference{Daltio2016,
 abstract = {Scientific data often come from networks with complex relationships between their entities and can be properly modeled as semantic graphs. However, once designed, there is no simple way to cross through different designs in graph databases. The goal of this research is to specify and implement a framework to overcome these limitations, allowing users to build and explore arbitrary perspectives in graphs. The framework uses the concept of views to represent a perspective. The main contribution is to help scientists run models and analyze network (graph) data according to their specific design needs. The framework is under implementation and validation using a case study on water resource data.},
 address = {Los Angeles},
 author = {Jaudete Daltio and Claudia Bauzer Medeiros},
 date = {2016-02-03},
 editor = {10th IEEE International Conference on Semantic Computing},
 howpublished = {Proceedings 10th IEEE ICSC},
 keyword = {Graph Databases},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2016/02/PID4045125.pdf},
 pages = {1-5},
 publisher = {Proceedings 10th IEEE ICSC},
 title = {A View Handler for Semantic Graphs},
 year = {2016}
}


                    	

                        	
@conference{Daltio2015,
 abstract = {Water becomes, every day, more scarce. Reliable information about volume and quality in each watershed is important to management and proper planning of their use. Data-intensive science is being increasingly needed in this context. Associated analysis processes require handling the drainage network that represents a watershed. This paper presents an ongoing work that explores geographic watershed data using graph databases – a scalable and flexible kind of NoSQL databases. The Brazilian Watershed database is used as a case study. The mapping between geographic and graph models is based on the natural network that emerges from the topological relationships among geographic entities.},
 address = {Campos do Jordao},
 author = {Jaudete Daltio and Claudia Bauzer Medeiros},
 booktitle = {XVI Brazilian Symposium on Geoinformatics (GEOINFO)},
 date = {2015-11-30},
 keyword = {Graph Databases},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2016/02/daltio_medeiros_geoinfo.pdf},
 pages = {44-55},
 title = {Hydrograph: Exploring Geographic Data in Graph Databases},
 year = {2015}
}


                    	

                        	
@phdthesis{Gomes-Jr2015c,
 abstract = {Understanding and quantifying the emergent properties of natural and man-made networks such as food webs, social interactions, and transportation infrastructures is a challenging task. The complex networks field was developed to encompass measurements, algorithms, and techniques to tackle such topics. Although complex networks research has been successfully applied to several areas of human activity, there is still a lack of common infrastructures for routine tasks, especially those related to data management. On the other hand, the databases field has focused on mastering data management issues since its beginnings, several decades ago. Database systems, however, offer limited network analysis capabilities. To enable a better support for complex network analysis tasks, a database system must offer adequate querying and data management capabilities. This thesis advocates for a tighter integration between the areas and presents our efforts towards this goal. Here we describe the Complex Data Management System (CDMS), which enables explorative querying of complex networks through a declarative query language. Query results are ranked based on network measurements assessed at query time. To support query processing, we introduce the Beta-algebra, which offers an operator capable of representing diverse measurements typical of complex network analysis. The algebra offers opportunities for transparent query optimization through query rewritings, proposed and discussed here. We also introduce the mapper mechanism for relationship management, which is integrated in the query language. The flexible query language and data management mechanisms are useful in scenarios other than complex network analysis. We demonstrate the use of the CDMS in applications such as institutional data integration, information retrieval, classification and recommendation. All aspects of the proposal are implemented and have been tested with real and synthetic data.},
 author = {Luiz Celso Gomes Junior},
 date = {2015-10-26},
 keyword = {Complex Networks, Databases},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2016/02/Celso-Jr-Doutorado.pdf},
 school = {Universidade Estadual de Campinas - UNICAMP},
 title = {Querying and Managing Complex Networks},
 year = {2015}
}


                    	

                        	
@conference{Pantoja2015,
 abstract = {In biological data, Identification Keys (IKs) are central artifacts used by biologists to identify the taxonomic group of an observed specimen, such as family, order, species, etc. Despite their relevance, IKs are usually defined in a semistructured textual format, which does not favor easily retrieval and deep analysis over their data. This article aims to present a method to formally structure and extract semantic facts from IKs relying on graphs and domain ontologies. The approach explores classical extraction and matching procedures combined with the specific characteristics of IKs. Initial experiments reveal the feasibility of the approach.},
 author = {Fagner L. Pantoja and Julio Cesar Dos Reis and André Santanchè},
 booktitle = {Proceedings of the Brazilian Symposium on Databases (SBBD), 2015},
 date = {2015-10-13},
 keyword = {Identification Keys, NER, Semantic Interpretation},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2016/02/article-2015-08-20comments2.pdf},
 title = {Semantic Interpretation of Biological Identification Keys},
 year = {2015}
}


                    	

                        	
@conference{Cavoto2015c,
 abstract = {In this paper, we present ReGraph, a framework to map data from a relational to a graph database, managing a dynamic coexistence and evolution of both, not supported by related work. ReGraph has minimal impact in the existing infrastructure, providing a flexible and tailored graph model for each relational schema. It uses an initial ETL (Extract, Transform and Load) process to replicate the existing data in the graph database. A scheduled service is responsible for reflecting changes in the relational data into the graph, keeping both synchronized. ReGraph also provides an annotation functionality that allows users to add new information in the mapped graph, providing the materialization of inferences and data
enrichment.},
 address = {Petrópolis, RJ},
 author = {Patrícia Cavoto and André Santanchè},
 booktitle = {Proceedings of Satellite Events of the 30th Brazilian Symposium on Databases 2015 (SBBD 2015)},
 date = {2015-10-13},
 isbn = {2316-5170},
 keyword = {graph database, ReGraph framework, relational database},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2016/02/Cavoto2015c.pdf},
 note = {Demo-paper},
 pages = {179-184},
 publisher = {Sociedade Brasileira de Computação (SBC)},
 title = {ReGraph: Bridging Relational and Graph Databases},
 year = {2015}
}


                    	

                        	
@conference{Mota2015b,
 abstract = {Biologists increasingly need a unified view to understand and discover relationships among data elements scattered along data sources with different levels of heterogeneity. Existing approaches usually adopt ad-hoc heavyweight integration strategies, requiring a costly upfront effort involving a monolithic chain of steps to handle specific formats/schemas, with low or no reuse. This article proposes an original framework based on scales aligned with the dataspaces on demand integration principle. Scales systematize and encapsulate integration in discrete steps, fulfilling the dynamicity of the process through reuse of previous scales and localized customization. Although the proposed framework can be extended to several scenarios, this work focuses on the biology domain addressing the organism-centric analysis scenario.},
 author = {Matheus Silva Mota and Julio Cesar dos Reis and Sandra Goutte and André Santanchè},
 booktitle = {Proceedings of the Brazilian Symposium on Databases (SBBD)},
 date = {2015-10-01},
 keyword = {linkedscales},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2015/09/paper1.pdf},
 title = {Multiscale Dataspace for Organism-centric Analysis},
 year = {2015}
}


                    	

                        	
@conference{Borges2015,
 abstract = {Model Organism Databases (MODs) são largamente utilizados em pesquisas nas áreas médica e biológica. Como cada MOD é usualmente especializado em um tipo de organismo e.g., peixe-zebra, rato, humano, camundongo torna-se difícil a busca da mesma característica em organismos distintos para fins de correlação e comparação. Este trabalho apresenta um framework chamado Unified MOD Discovery Engine, cujo objetivo é permitir a correlação e busca de dados de vários MODs, a partir da unificação da sua representação dos dados. Este artigo apresenta o primeiro passo nesta direção, em que foram analisados e comparados os modelos de dados de dois MODs, o ZFIN (peixa-zebra) e MGI (camundongo), como base para a concepção de um modelo unificado. Tal modelo é a base de um grafo interligado, que permitirá ao usuário fazer buscas e comparações de forma unificada.},
 author = {Luana Loubet Borges and André Santanchè},
 booktitle = {Proceedings of 7th Brazilian Conference on Ontological Research (ONTOBRAS 2015)},
 date = {2015-09-10},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2016/02/ontobras-luana-santanche-2015.pdf},
 pages = {1-6},
 title = {Unificando a Comparação e Busca de Fenótipos em Model Organism Databases},
 year = {2015}
}


                    	

                        	
@conference{Mota2015,
 abstract = {A consequence of the intensive growth of information shared online is the increase of opportunities to link and integrate distinct sources of knowledge. This linking and integration can be hampered by different levels of heterogeneity in the available sources. Existing approaches focusing on heavyweight integration – e.g., schema mapping or ontology alignment – require costly upfront efforts to handle specific formats/schemas. In this scenario, dataspaces emerge as a modern alternative approach to address the integration of heterogeneous sources. The classic heavyweight upfront one-step integration is replaced by an incremental integration, starting from lightweight connections, tightening and improving them when benefits worth such effort. Based on several previous work on data integration for data analysis, this work discusses the conception of a multiscale-based dataspace architecture, called LinkedScales. It departs from the notion of integration-scales within a dataspace, and defines a systematic and progressive integration process via graph-based transformations over a graph database. LinkedScales aims to provide a homogeneous view of heterogeneous sources, allowing systems to reach and produce different integration levels on demand, going from raw representations (lower scales) towards ontology-like structures (higher scales).},
 author = {Matheus Silva Mota and André Santanchè},
 booktitle = {Proceedings of the Brazilian Seminar on Ontologies (ONTOBRAS 2015)},
 date = {2015-09-08},
 issn = {16130073},
 keyword = {dataspace, multscale},
 link = {http://www.ime.usp.br/~ontobras/wp-content/uploads/2015/09/Conceiving-a-Multiscale-Dataspace-for-Data-Analysis.pdf
http://www.lis.ic.unicamp.br/?attachment_id=690
http://ceur-ws.org/Vol-1442/paper_21.pdf},
 pages = {12},
 publisher = {CEUR},
 title = {Conceiving a Multiscale Dataspace for Data Analysis},
 volume = {1442},
 year = {2015}
}


                    	

                        	
@conference{Cavoto2015b,
 abstract = {In the last years, the use of data available in “global graphs” as Linked Open Data and Ontologies are increasing faster and bringing with them the popularization of the graph structure to represent information networks. One challenge, in this context, is how to link local and global knowledge graphs. This paper presents an approach to address this problem through an annotation-based method to link a local graph database to global graphs. Different from related work, the local graph is not derived from a static dataset, but it is a dynamic graph database evolving along the time, containing connections (annotations) with global graphs that must stay consistent during its evolution. We applied this method over a dataset with more than 44,500 nodes, annotating them with the values found in DBpedia and GeoNames. The proposed method is an extension of our ReGraph framework that bridges relational and graph databases, keeping both integrated, synchronized and in their native representations, with minimal impact in the current infrastructure.},
 author = {Patrícia Cavoto and André Santanchè},
 booktitle = {Proceedings of the Brazilian Seminar on Ontologies (ONTOBRAS 2015)},
 date = {2015-09-08},
 issn = {16130073},
 keyword = {annotation-based method, graph database, ontologies, ReGraph framework},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2016/02/Cavoto2015b.pdf},
 note = {Short-paper},
 pages = {1-6},
 title = {Annotation-Based Method for Linking Local and Global Knowledge Graphs},
 volume = {1442 CEUR},
 year = {2015}
}


                    	

                        	
@conference{Cavoto2015,
 abstract = {There are a lot of data about biodiversity stored in different database models and most of them are relational. Recent research shows the importance of links and network analysis to discover knowledge in existing data. However, the relational model was not designed to address problems in which the links between data have the same importance as the data -- a common scenario in the biodiversity area. Moreover, the Linked Data and Semantic Web efforts empowered the fast growth of open knowledge repositories on the web, mainly in the RDF (Resource Description Framework) graph model. The flexible graph database model contrasts with the rigid relational model and is also suitable for data analysis focusing on links and the network topology, e.g., a connected component analysis. Our research is inspired by the data OLAP (OnLine Analytical Processing) approach of creating a special database designed for data analysis, a network-driven data analysis using graph databases, in our case. Beyond an initial ETL (Extract, Transform and Load) approach, we are facing the challenge of migrating the data from the relational to the graph database, managing a dynamic coexistence and evolution of both, not supported by related work. This work is motivated by a joint research involving network-driven data analysis over the FishBase global information system. We present a novel approach to analyzing the connections among thousands of identification keys and species and to linking local data to third party knowledge bases on the web.},
 address = {Munich, Germany},
 author = {Patrícia Cavoto and Victor Cardo and Régine Vignes Lebbe and André Santanchè},
 booktitle = {2015 IEEE 11th International Conference on e-Science (e-Science 2015)},
 date = {2015-08-31},
 keyword = {Biodiversity Information Systems, graph database, network topology analysis},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2016/02/Cavoto2015.pdf},
 pages = {177 - 186},
 publisher = {IEEE},
 title = {FishGraph: A Network-Driven Data Analysis},
 year = {2015}
}


                    	

                        	
@article{Bernardo2015,
 abstract = {Spreadsheets are widely adopted as “popular databases”, where authors shape their solutions interactively. Although spreadsheets are easily adaptable by the author, their informal schemas cannot be automatically interpreted by machines to integrate data across independent spreadsheets. In biology, we observed a significant amount of biodiversity data in spreadsheets treated as isolated entities with different tabular organizations, but with high potential for data articulation. In order to automatically interpret these spreadsheets we exploit construction patterns followed by users in the biodiversity domain. This paper details evidences of such patterns and how they can lead to characterize the nature of a spreadsheet, as well as, its fields in a domain. It combines an automatic analysis of thousands of spreadsheets, collected on the Web, with results from a survey conducted with biologists. We propose a representation model to be used in automatic interpretation systems that captures these patterns.},
 author = {Ivelize Rocha Bernardo and Michela Borges and Maria Cecília Calani Baranauskas and André Santanchè},
 date = {2015-07-31},
 journal = {Enterprise Information Systems},
 keyword = {Biodiversity data integration, Pattern recognition, Semantic mapping, Spreadsheet interpretation},
 link = {http://link.springer.com/chapter/10.1007/978-3-319-22348-3_22},
 pages = {397-414},
 title = {Interpretation of Construction Patterns for Biodiversity Spreadsheets},
 volume = {227},
 year = {2015}
}


                    	

                        	
@mastersthesis{Batista2015,
 abstract = {Séries temporais são utilizadas em diversos domínios do conhecimento, por exemplo, economia, meteorologia e agricultura. Em várias situações, cientistas, muitas vezes, associam anotações a séries durante sua análise. Além disso, precisam buscar e correlacionar vários tipos de séries para estudar algum problema. Isto é dificultado não só pela heterogeneidade entre as séries, como também pela limitação dos mecanismos de busca por séries relevantes a uma correlação. As modalidades predominantes na busca por séries são baseadas ou em casamento de texto (anotações) ou em casamento de padrões. Não permitem buscas por séries que estejam relacionadas semanticamente. Diante deste cenário, esta dissertação propõe o TS³Annotation, um framework que usa anotações semânticas como base para permitir o estudo de correlações entre séries. As principais contribuições desta dissertação são: (1) um modelo de anotação semântica para séries temporais; (2) e o framework TS³Annotation que permite a especialistas anotar semanticamente séries, além de explorar o uso destas anotações como uma nova possibilidade na busca por séries temporais.},
 author = {Lucas Oliveira Batista},
 date = {2015-07-07},
 keyword = {Semantic Annotation, Time Series Search, Time Series Semantic Annotation Model},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2015/08/LucasBatista_DissertacaoFinal.pdf},
 school = {Universidade Estadual de Campinas - UNICAMP},
 title = {Apoio ao Estudo de Correlações entre Séries Temporais baseadas em Anotações Semânticas},
 year = {2015}
}


                    	

                        	
@mastersthesis{santo2015,
 abstract = {Aplicações de biodiversidade se caracterizam por necessitar de uma grande variedade de dados ambientais em múltiplas escalas. Este contexto envolve uma enorme quantidade de dados gerados por fontes heterogêneas, sendo o fluxo de dados de sensores uma das principais fontes. Um problema em aberto neste contexto é como especificar e detectar cenários de interesse a partir de variáveis ambientais em múltiplas escalas, para facilitar aos cientistas a análise de fenômenos e correlações com dados coletados em campo. Para ajudar a solucionar o problema, a dissertação se baseia na teoria de Processamento de Eventos Complexos para permitir a especificação de cenários através de padrões e a detecção da ocorrência do cenário em tempo real. Nesta literatura, dados são tratados como eventos e padrões são descritos pelas especificações de eventos e seus relacionamentos. Linguagens de eventos, no entanto, não consideram aspectos espaciais (necessários em biodiversidade) e a composição de eventos é limitada. Tendo em vista esse contexto, a dissertação propõe uma linguagem baseada em lógica para que cientistas especifiquem cenários de interesse. Esses cenários são baseados em composição de eventos complexos.
As principais contribuições da dissertação são: proposta da arquitetura de um framework para detecção de eventos complexos, que estende o trabalho de Koga 2013; um modelo de dados para representar eventos em biodiversidade; e uma linguagem para descrever padrões de forma hierárquica, explorando o relacionamento espacial e temporal entre os eventos em diferentes níveis de abstração.},
 author = {Jacqueline Midlej do Espírito Santo},
 date = {2015-07-06},
 keyword = {Complex Event Processing, Pattern Detection, Pattern Specification},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2015/07/JacquelineMidlej-Dissertacao.pdf},
 school = {Universidade Estadual de Campinas - UNICAMP},
 title = {Especificação e Detecção de Padrões Complexos de Variáveis Ambientais em Aplicações de Biodiversidade},
 year = {2015}
}


                    	

                        	
@mastersthesis{Beserra2015,
 abstract = {Many scientific research procedures rely upon the analysis of data obtained from heterogeneous sources. The validity of the research results depends, among others, on the quality of data. Data quality is a topic that has pervaded computer science research for decades. Though there are many proposals for data quality assessment, there are still open problems such as mechanisms to support flexible quality assessment and ways to derive data quality. The goal of this dissertation is to work on these issues. The main contribution of this dissertation is the proposal of QualityFlow: a quality-aware collaborative platform for experiments in eScience. The following contributions were accomplished: to support the creation of quality-aware scientific workflows, allowing the addition of quality attributes to workflows, while at the same time letting distinct users define their specific quality metrics for the same workflow; to allow users to keep track of different quality assessments for a given process, thereby providing insights into the actual value of data and workflow; and to allow scientists to customize data quality dimensions and quality metrics collaboratively. QualityFlow was developed as a web prototype, and executed in two experiments - one based upon a real problem and the other on a sample workflow.},
 author = {Renato Beserra},
 date = {2015-06-12},
 keyword = {Data quality},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2016/02/TeseRenatoBeserra.pdf},
 school = {Universidade Estadual de Campinas - UNICAMP},
 title = {Quality Flow: a collaborative quality-aware platform for experiments in eScience},
 year = {2015}
}


                    	

                        	
@conference{Creus-Tomas2015,
 abstract = {This paper presents a novel approach to classify agricultural crops using NDVI time series. The novelty lies in i) extracting a set of features from the each and every NDVI curve, and ii) using them to train a crop classification model using a Support Vector Machine (SVM). Specifically, we use the TIMESAT program package to: 1) smooth the time series, 2) decompose them into agricultural seasons–a season is the period between sowing and harvesting–, and 3) extract the features for each season. The 11 crop features we extract include the start and end of season, its amplitude, and the curve gradients of the sprouting and senescence periods, among others. Once we have the collection of features, they are fed into an SVM system –we use the LIBSVM library–, together with a collection of annotations about the land use of the corresponding time series. These annotations represent the type of crop for a given location and agricultural season, and they are provided by the specialists of the Embrapa. As a result we obtain a classification model that allows for identifying different crop classes. Our methodology is generic and can be applied to a variety of regions and crop types. We have develop a system called SIRCUB (Sistema de Reconhecimento de Culturas brasileiro), which implements such methodology. Thus, we describe in this paper the architecture of the system and the crop model learning methodology.},
 author = {Jordi Creus-Tomàs and Fabio Augusto Faria and Júlio César Dalla Mora Esquerdo and Alexandre Camargo Coutinho and Claudia Bauzer Medeiros},
 booktitle = {XVII Simpósio Brasileiro de Sensoriamento Remoto},
 date = {2015-04-25},
 keyword = {Conference, crop classification, LULC, NDVI, séries temporais, SVM, time series, Timesat},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2015/04/sircub_sbsr1.pdf},
 title = {SiRCub -- Brazilian Agricultural Crop Recognition System},
 year = {2015}
}


                    	

                        	
@conference{Gomes-Jr2015b,
 abstract = {Graph analysis is an essential tool to understand natural and man-made networks, such as social networks, food webs, transportation infrastructures, etc. Although graph analysis has fomented the development of algorithms, visual tools, and distributed processing frameworks, there is still little support for analysis at the query language level. Current graph query languages are mostly concerned with flexible matching of subgraphs, while graph processing frameworks are mostly concerned with fast parallel execution of instructions. Our goal is to provide analysis capabilities at the language level, allowing more interactive and explorative query-based analysis. In this paper, we present our ongoing efforts towards a relational algebra extension that offers an operator for graph-based data aggregation. The beta (β) operator is composed of four suboperators, which are used to control the path-based aggregations. The β-algebra allows seamless composition of queries that mix relational and graph-based aspects. Here we introduce our current algebra and provide examples of its use. We also show how we are using the analysis strategy in query scenarios. Since the algebra-based query scenario allows for execution plan rewritings, we also discuss our first efforts on equivalence rules for query optimization.},
 author = {Luiz Gomes-Jr and Bernd Amann and André Santanche},
 booktitle = {Workshop Proceedings of the EDBT/ICDT 2015 Joint Conference},
 date = {2015-03-18},
 journal = {GraphQ/EDBT 2015},
 keyword = {Conference},
 link = {http://ceur-ws.org/Vol-1330/paper-26.pdf},
 title = {Beta-Algebra: Towards a Relational Algebra for Graph Analysis},
 year = {2015}
}


                    	

                        	
@article{Gomes-Jr.2015,
 abstract = {The expansion of the Web and of our capacity of producing and storing information have had a profound impact on the way we organize, manipulate and share data. We have seen an increased specialization of database back-ends and data models to respond to modern application needs: text indexing engines organize unstructured data, standards and models were created to support the Semantic Web, Big Data requirements stimulated an explosion of data representation and manipulation models. This complex and heterogeneous environment demands unified strategies that enable data integration and, especially, cross-application, expressive querying. Here we present a new approach for the integration of structured and unstructured data within organizations. Our solution is based on the Complex Data Management System (CDMS), a system being developed to handle data typical of complex networks. The CDMS enables a relationship-centric interaction with data that brings many advantages to the institutional data integration scenario, allowing applications to rely on common models for data querying and manipulation. In our framework, diverse data models are integrated in a unifying RDF graph. A novel query model allows the combination of concepts from information retrieval, databases, and complex networks into a declarative query language that extends SPARQL. This query language enables flexible correlation queries over the unified data, enabling support for a wide range of applications such as CMSs, recommendation systems, social networks, etc. We also introduce Mappers, a data management mechanism that simplifies the integration of heterogeneous data and that is integrated in the query language for further flexibility. Experimental results from real data demonstrate the viability of our approach.},
 author = {Luiz Gomes-Jr. and André Santanche},
 date = {2015-02-24},
 journal = {Transactions on Large-Scale Data- and Knowledge-Centered Systems XIX},
 keyword = {Journal Paper},
 link = {http://link.springer.com/chapter/10.1007%2F978-3-662-46562-2_2},
 pages = {26-54},
 title = {The Web Within: Leveraging Web Standards and Graph Analysis to Enable Application-Level Integration of Institutional Data},
 volume = {8990},
 year = {2015}
}


                    	

                        	
@conference{SantoSBBD2014,
 abstract = {Biodiversity scientists often need to define and detect scenarios of interest from data streams delivered from meteorological sensors. For example, scenarios such deforestation or forest fire need to be detected in order to reduce impacts over the environment. Such data streams are characterized by their heterogeneity across spatial and temporal scales, which hampers detection of events and construction of scenarios. To help scientists in this task, this work proposes the use of the theory of Complex Event Processing (CEP) to define and detect complex event patterns in this context. The two main contributions focus on the specification of events and patterns for the biodiversity context and on the mechanism to detect these patterns. The first one requires to extend an Event Processing Language (EPL) to include spatial relationships in the pattern. The second one will extend Koga’s framework [Koga 2013], which integrates heterogeneous data sources, with the detection of complex patterns. This paper extends the short paper accepted for the Brazilian Workshop e-Science (BreSci) 2014 with the specification for events and patterns.},
 address = {Curitiba -PR},
 author = {Jacqueline Midlej do Espírito Santo and Claudia Bauzer Medeiros},
 booktitle = {Proc of SBBD 2014 - WTDBD},
 date = {2014-10-08},
 editor = {Mirela Moto et al},
 issn = {2316-5170},
 keyword = {Complex Event Processing, Conference, Multiscale, Pattern Specification},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2015/04/wtd_sbbd_v4-2.pdf},
 note = {Short-paper},
 pages = {288-294},
 publisher = {Sociedade Brasileira de Computação (SBC)},
 title = {Complex Pattern Detection and Specification to Support Biodiversity Applications},
 year = {2014}
}


                    	

                        	
@conference{BatistaMedeiros2014b,
 abstract = {Time series are used in several domains of knowledge. During their analysis, experts often create or analyze associations between time series and annotations. In order to study a problem, for example, patient behavior or crop patterns, experts need to search and correlate several time series. However, finding appropriate series related with a problem is a difficult task. Search is usually performed using a few parameters, such as series geographic location. Annotations may be used to help the search using string match. Given this scenario, this paper discusses a work in progress to design and partially develop a software framework to search time series via semantic annotations. It will support experts in the correlation of time series, foster collaboration among experts, and allow the use of Linked Data concepts to aggregate knowledge to content. This paper extends the short paper accepted for BRESCI - Brazilian Workshop e-Science 2014. The extensions include a time series semantic annotation model, implementation details, and a longer theoretical related work section.},
 address = {Curitiba - PR, Brasil},
 author = {Lucas Oliveira Batista and Claudia Bauzer Medeiros},
 booktitle = {Proc. SBBD 2014 - XIII Workshop de Teses e Dissertações em Banco de Dados (WTDBD)},
 date = {2014-10-08},
 issn = {2316-5170},
 keyword = {Semantic Annotation, Time Series Search, Time Series Semantic Annotation Model},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2015/04/LucasBatista_WTDBDFInal1.pdf},
 note = {Short-paper},
 pages = {339 - 345},
 publisher = {Sociedade Brasileira de Computação (SBC)},
 title = {Searching Time Series via Semantic Annotations},
 year = {2014}
}


                    	

                        	
@conference{Cavoto2014,
 abstract = {A complexidade e o volume dos relacionamentos entre as informações, bem como a necessidade de manter e integrar dados de estruturas heterogêneas aumentam exponencialmente a cada dia. Isto é particularmente importante no contexto de eScience, especialmente biodiversidade, área de interesse deste projeto – em que as relações são fundamentais nas análises. Neste contexto, o modelo de banco de dados de grafos pode apresentar-se como uma abordagem mais apropriada e eficiente no gerenciamento e recuperação destas informações. Em contrapartida, há um grande legado de sistemas que utilizam bancos de dados relacionais, que cumprem um papel fundamental em diversas tarefas. Apresentamos então neste trabalho uma proposta de arquitetura híbrida de integração que permite a convivência dos modelos relacional e de grafos em sua forma nativa, reduzindo o impacto de adaptações em bases relacionais preexistentes e explorando as vantagens de cada modelo nativo nas operações de gerenciamento e recuperação.},
 address = {Curitiba - PR, Brasil},
 author = {Patrícia Cavoto and André Santanchè},
 booktitle = {Proc. SBBD 2014 - XIII Workshop de Teses e Dissertações em Banco de Dados (WTDBD)},
 date = {2014-10-06},
 issn = {2316-5170},
 journal = {Proceedings of SBBD 2014 - WTDBD, Sociedade Brasileira de Computação (SBC), Curitiba -PR, 2014, ISSN: 2316-5170, (Short-paper).},
 keyword = {banco de dados híbrido, integração de bases, modelo de grafos, modelo relacional},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2016/02/Cavoto2014.pdf},
 note = {Short-paper},
 pages = {274-280},
 publisher = {Sociedade Brasileira de Computação (SBC)},
 title = {Arquitetura Híbrida de Integração entre Banco de Dados Relacional e de Grafos},
 year = {2014}
}


                    	

                        	
@article{SantancheMedeirosJomier2014,
 abstract = {Work on multiscale issues presents countless challenges that have been long attacked by GIScience researchers. Research is usually concentrated in one of two directions - new data models to support handling multiple scales, or data structures and algorithms to process data across scales. Complementary implementation aspects are concerned with generalization (and/or virtualization of distinct scales), or with linking entities of interest across scales (e.g., using bottom-up implementation of specific structures, without relying on any specific DBMS). However, researchers seldom take into account the fact that multiscale scenarios are increasingly constructed cooperatively, and require distinct perspectives of the world, in which each research group considers specific aspects of a problem. The combination of handling multiple scales at a time, and having multiple user perspectives per scale constitutes what we call multi-focus research. This paper presents our proposal to attack multi-focus scenarios, which considers distinct aspects of the problem of managing multiple scales, illustrated with examples of multiscale geospatial data. Our approach builds upon a specific database version model – the so-called multiversion MVDB – which has already been successfully implemented in several geospatial scenarios, being extended here to support multi-focus research. This extension was implemented and tested in a real world case study, briefly discussed here.},
 author = {André Santanchè and João Sávio C. Longo and Geneviève Jomier and Michel Zam and Claudia Bauzer Medeiros},
 date = {2014-09-18},
 journal = {JIDM - Journal of Information and Data Management},
 keyword = {Geospatial data, Multiple aspects, Multiscale, Multiscale views, Version},
 link = {https://seer.lcc.ufmg.br/index.php/jidm/article/view/418/626},
 number = {2},
 pages = {146-160},
 title = {Multi-focus Research and Geospatial Data - anthropocentric concerns},
 volume = {5},
 year = {2014}
}


                    	

                        	
@conference{SantoBRESCI2014,
 abstract = {Biodiversity scientists often need to define and detect scenarios of interest from data streams concern meteorological sensors. Such streams are
characterized by their heterogeneity across spatial and temporal scales, which hampers construction of scenarios. To help them in this task, this paper proposes the use of the theory of Complex Event Processing (CEP) to detect complex event patterns in this context.},
 address = {Brasília - DF},
 author = {Jacqueline Midlej do Espírito Santo and Claudia Bauzer Medeiros},
 booktitle = {Proc. of CSBC 2014 - BreSci},
 date = {2014-07-31},
 editor = {Eduardo Adilio Pelinson Alchieri and Priscila Solís Barreto},
 issn = {2175-2761},
 keyword = {Complex Event Processing, Conference, Pattern Detection},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2015/04/bresciFinal.pdf},
 note = {Short-paper},
 pages = {389-392},
 publisher = {Sociedade Brasileira de Computação (SBC)},
 title = {Complex Pattern Detection and Specification from Multiscale Environmental Variables for Biodiversity Applications},
 year = {2014}
}


                    	

                        	
@conference{BatistaMedeiros2014,
 abstract = {This paper shows a work in progress to design and develop a software framework that supports experts in the correlation of time series. It will allow searching for time series via semantic annotations. Thereby fostering collaboration among experts, and aggregate knowledge to content.},
 address = {Brasília - DF, Brasil},
 author = {Lucas Oliveira Batista and Claudia Bauzer Medeiros},
 booktitle = {Proc. CSBC 2014 - VIII Brazilian e-Science Workshop (BRESCI)},
 date = {2014-07-31},
 editor = {Eduardo Adilio Pelinson Alchieri and Priscila Solís Barreto},
 issn = {2175-2761},
 keyword = {Semantic Annotation, time series},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2015/04/LucasBatistaBresciFinal.pdf},
 note = {Short-paper},
 pages = {385-388},
 publisher = {Sociedade Brasileira de Computação (SBC)},
 title = {Supporting the Study of Correlations between Time Series via Semantic Annotations},
 year = {2014}
}


                    	

                        	
@conference{Miranda2014b,
 abstract = {A large number of studies in biology, including those involv- ing phylogenetic tree reconstruction, result in the production of a huge amount of data – e.g., phenotype descriptions, morphological data ma- trices, etc. Biologists increasingly face a challenge and opportunity of effectively discovering useful knowledge by crossing and comparing sev- eral pieces of information, not always linked and integrated. Our moti- vation stems from the idea of transforming these data into a network of relationships, looking for links among related elements and enhanc- ing the ability to solve more complex problems supported by machines. This work addresses this problem through a graph database model, link- ing and coupling phylogenetic trees and phenotype descriptions. In this paper we give an overview of an experiment exploiting the synergy of linked data sources to support biologists in data analysis, comparison and inferences.},
 address = {Lisbon, Portugal},
 author = {Eduardo Miranda and Anaıs Grand and Régine Vignes Lebbe and André Santanchè},
 date = {2014-07-17},
 journal = {10th International Conference on Data Integration in the Life Sciences},
 keyword = {Conference},
 link = {http://dils2014.inesc-id.pt/data/uploads/paper_38.pdf},
 organization = {DILS 2014},
 publisher = {10th International Conference on Data Integration in the Life Sciences},
 title = {Towards a Linked Biology - An integrated perspective of phenotypes and phylogenetic trees},
 year = {2014}
}


                    	

                        	
@conference{Daltio2014,
 abstract = {Scientific research has become data-intensive and data-dependent, with distributed, multidisciplinary, teams creating and sharing their findings. Graph databases are being increasingly considered as a computational means to loosely integrate such data, in particular when relationships among data and the data itself are at the same importance level. However, a problem to be faced in this context is that of multiple foci – where a focus, here, is a perspective on the data, for a particular research team and context. This paper describes a conceptual framework for the construction of arbitrary foci on graph databases, to help solve this problem. The framework, under construction, is illustrated using examples based on needs of teams involved in biodiversity research.},
 address = {Lisboa, Portugal},
 author = {Jaudete Daltio and Claudia Bauzer Medeiros},
 booktitle = {Lecture Notes in Bioinformatics (LNBI) - Proceedings of 10th International Conference on Data Integration in the Life Sciences},
 date = {2014-07-17},
 editor = {Springer International Publishing Switzerland},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2015/04/Handling-Multiple-Foci-in-Graph-Databases.pdf},
 pages = {58-65},
 title = {Handling Multiple Foci in Graph Databases},
 volume = {8574},
 year = {2014}
}


                    	

                        	
@phdthesis{Cugler2014,
 abstract = {Biological observation databases contain information about the occurrence of an organism or set of organisms detected at a given place and time according to some methodology. Such databases store a variety of data, at multiple spatial and temporal scales, including images, maps, sounds, texts and so on. This priceless information can be used in a wide range of research initiatives, e.g., global warming, species behavior or food production. All such studies are based on analyzing the records themselves, and their metadata. Most times, analyses start from metadata, often used to index the observation records. However, given the nature of observation activities, metadata may suffer from quality problems, hampering such analyses. For example, there may be metadata gaps (e.g., missing attributes, or insufficient records). This can have serious effects: in biodiversity studies, for instance, metadata problems regarding a single species can affect the understanding not just of the species, but of wider ecological interactions. This thesis proposes a set of processes to help solve problems in metadata quality. While previous approaches concern one given aspect of the problem, the thesis provides an architecture and algorithms that encompass the whole cycle of managing biological observation metadata, which goes from acquiring data to retrieving database records. Our contributions are divided into two categories: (a) data enrichment and (b) data cleaning. Contributions in category (a) provide additional information for both missing attributes in existent records, and missing records for specific requirements. Our strategies use authoritative remote data sources and VGI (Volunteered Geographic Information) to enrich such metadata, providing missing information. Contributions in category (b) detect anomalies in biological observation metadata by performing spatial analyses that contrast location of the observations with authoritative geographic distribution maps. Thus, the main contributions are: (i) an architecture to retrieve biological observation records, which derives missing attributes by using external data sources; (ii) a geographical approach for anomaly detection and (iii) an approach for adaptive acquisition of VGI to fill out metadata gaps, using mobile devices and sensors. These contributions were validated by actual implementations, using as case study the challenges presented by the management of biological observation metadata of the Fonoteca Neotropical Jacques Vielliard (FNJV), one of the top 10 animal sound collections in the world.},
 author = {Daniel Cintra Cugler},
 date = {2014-05-08},
 keyword = {Biodiversity Information Systems},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2017/01/CuglerDanielCintra_D.pdf},
 note = {Supervisor Claudia Bauzer Medeiros},
 school = {Universidade Estadual de Campinas - UNICAMP},
 title = {Supporting the collection and curation of biological observation metadata},
 year = {2014}
}


                    	

                        	
@conference{Bernardo2014,
 abstract = {Spreadsheets are widely adopted as "popular databases", where authors shape their solutions interactively. Although spreadsheets have characteristics that facilitate their adaptation by the author, they are not designed to integrate data across independent spreadsheets. In biology, we observed a significant amount of biodiversity data in spreadsheets treated as isolated entities with different tabular organizations, but with high potential for data articulation. In order to promote interoperability among these spreadsheets, we propose in this paper a technique based on pattern recognition of spreadsheets belonging to the biodiversity domain. It can be exploited to identify the spreadsheet in a higher level of abstraction – e.g., it is possible to identify the nature a spreadsheet as catalog or collection of specimen – improving the interoperability process. The paper details evidences of construction patterns of spreadsheets as well as proposes a semantic representation to them.},
 author = {Ivelize Rocha Bernardo and André Santanchè and Maria Cecília Calani Baranauskas},
 booktitle = {Proceedings of the 16th International Conference on Enterprise Information Systems (ICEIS 2014)},
 date = {2014-04-27},
 keyword = {Biodiversity data integration, Information Integration, Patterns Recognition, Semantic mapping, Spreadsheet interpretation},
 link = {http://www.scitepress.org/DigitalLibrary/PublicationsDetail.aspx?ID=oEnR7oWqnHw=&t=1},
 pages = {57-68},
 title = {Automatic Interpretation Biodiversity Spreadsheets Based on Recognition of Construction Patterns},
 year = {2014}
}


                    	

                        	
@article{SenraMedeiros2014,
 abstract = {We are overwhelmed and overloaded with the data deluge brought by the digital age. Hierarchies are pervasive cognitive patterns that allow us to reorganize data and reduce the dimensionality of the information space to manageable levels (e.g., filesystems and navigational menus). In spite of their widespread adoption, such hierarchies can be improved to cope with the present needs of data sharing and reuse. First, we seldom use mechanisms to evaluate how well they partition the information space. Second, we build static and content-driven hierarchies instead of dynamic and context-driven (i.e., task-driven) ones. Third, we use ad hoc and implicit hierarchization criteria, whereas they should be explicit and shareable. This paper discusses the problems related to the construction of hierarchies, and presents a conceptual framework to turn them into reconfigurable and shareable artifacts. Moreover, it explores how dynamically reconfigurable hierarchies can better cope with the multi-faceted nature of content, illustrating these principles through a tool that validates our proposal.},
 author = {Rodrigo Dias Arruda Senra and Claudia Bauzer Medeiros},
 date = {2014-04-16},
 journal = {International Journal of Metadata, Semantics and Ontologies},
 keyword = {Data integration, Data sharing, Organization, Organograph, Personal Information Management},
 link = {http://link.springer.com/article/10.1007%2Fs13740-014-0035-7},
 pages = {15-28},
 title = {Evaluate, Reorganize and Share: An Approach to Dynamically Organize Digital Hierarchies},
 volume = {9},
 year = {2014}
}


                    	

                        	
@phdthesis{vilar2014,
 abstract = {Workflow Management Systems (WfMS) are used to manage the execution of processes, improving efficiency and efficacy of the procedure in use. The driving forces behind the adoption and development of WfMSs are business and scientific applications. Associated research efforts resulted in consolidated mechanisms, consensual protocols and standards. In particular, a scientific WfMS helps scientists to specify and run distributed experiments. It provides several features that support activities within an experimental environment, such as providing flexibility to change workflow design and keeping provenance (and thus reproducibility) of experiments. On the other hand, barring a few research initiatives, WfMSs do not provide appropriate support to dynamic, context-based customization during run-time; on-the-fly adaptations usually require user intervention. This thesis is concerned with mending this gap, providing WfMSs with a context-aware mechanism to dynamically customize workflow execution. As a result, we designed and developed DynFlow - a software architecture that allows such a customization, applied to a specific domain: healthcare planning. This application domain was chosen because it is a very good example of context-sensitive customization. Indeed, healthcare procedures constantly undergo unexpected changes that may occur during a treatment, such as a patient¿s reaction to a medicine. To meet dynamic customization demands, healthcare planning research has developed semi-automated techniques to support fast changes of the careflow steps according to a patient's state and evolution. One such technique is Computer-Interpretable Guidelines (CIG), whose most prominent member is the Task-Network Model (TNM) -- a rule based approach able to build on the fly a plan according to the context. Our research led us to conclude that CIGs do not support features required by health professionals, such as distributed execution, provenance and extensibility, which are available from WfMSs. In other words, CIGs and WfMSs have complementary characteristics, and both are directed towards execution of activities. Given the above facts, the main contributions of the thesis are the following: (a) the design and development of DynFlow, whose underlying model blends TNM characteristics with WfMS; (b) the characterization of the main advantages and disadvantages of CIG models and workflow models; and (c) the implementation of a prototype, based on ontologies, applied to nursing care. Ontologies are used as a solution to enable interoperability across distinct SWfMS internal representations, as well as to support distinct healthcare vocabularies and procedures.},
 address = {Campinas - SP},
 author = {Bruno Siqueira Campos Mendonça Vilar},
 date = {2014-04-14},
 keyword = {Computer software, Health planning, Hospitals, Workflow, Workflow management systems},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2015/09/VilarBrunoSiqueiraCamposMendonça_D.pdf},
 school = {Instituto de Computação - Universidade Estadual de Campinas (UNICAMP)},
 title = {Context driven workflow adaptation applied to healthcare planning},
 year = {2014}
}


                    	

                        	
@conference{SousaMedeiros2014,
 abstract = {Long term preservation of scientific data goes beyond the data, and extends to metadata preservation and curation. While several researchers emphasize curation processes, our work is geared towards assessing the quality of scientific (meta)data. The rationale behind this strategy is that scientific data are often accessible via metadata - and thus ensuring metadata quality is a means to provide long term accessibility. This paper discusses our quality assessment architecture, presenting a case study on animal sound recording metadata. Our case study is an example of the importance of periodically assessing (meta)data quality, since knowledge about the world may evolve, and quality decrease with time, hampering long term preservation.},
 author = {Renato Beserra Sousa and Daniel Cintra Cugler and Joana Gonzales E. Malaverri and Claudia Bauzer Medeiros},
 booktitle = {2014 IEEE 30th International Conference on Data Engineering Workshops (ICDEW)},
 date = {2014-03-06},
 isbn = {978-1-4799-3481-2},
 keyword = {Data quality},
 link = {http://ieeexplore.ieee.org/document/6818316/},
 title = {A Provenance-Based Approach to Manage Long Term Preservation of Scientific Data},
 year = {2014}
}


                    	

                        	
@techreport{Miranda2014,
 abstract = {A large number of studies in biology, including those involving phylogenetic trees reconstruction, result in the production of a huge amount of data - e.g., phenotype descriptions, morphological data matrices, etc. Biologists increasingly face a challenge and opportunity of effectively discovering useful knowledge crossing and comparing several pieces of information, not always linked and integrated. Ontologies are one of the promising choices to address this challenge. However, the existing digital phenotypic descriptions are stored in semi-structured formats, making extensive use of natural language. This technical report is related to a research developed by us [] to addresses this problem, adding an intermediate step between semi-structured phenotypic descriptions and ontologies. It remodels semi-structured descriptions to a graph abstraction in which the data are linked. Graph transformations subsidize the transition from semi-structured data representation to a more formalized representation with ontologies. The present technical report drills down implementation details of our system. It provides a module to ingest phylogenetic trees and phenotype descriptions - represented in semi-structured formats - into a graph database. Additionally, two approaches to combine distinct data sources are presented and an algorithm to trace changes in phylogenetic traits of trees.},
 author = {Eduardo Miranda and André Santanchè},
 date = {2014-02-01},
 institution = {Institute of Computing, State University of Campinas},
 keyword = {Techreport},
 link = {http://www.ic.unicamp.br/~reltech/2014/14-06.pdf},
 number = {IC-14-06},
 pages = {56},
 title = {Linked biology technical aspects - linking phenotypes and phylogenetic trees.},
 type = {Technical Report},
 year = {2014}
}


                    	

                        	
@article{Malaverri2014,
 abstract = {Data quality is growing in relevance as a research topic. Quality assessment has been progressively incorporated in many business environments, and in software engineering practices. eScience environments, however, because of the multiplicity and heterogeneity of data sources and scientific experts involved in a given problem, complicate data quality assessment. This paper deals with the evaluation of the quality of data managed by eScience applications. Our approach is based on data provenance, i.e. the history of the origins and transformations applied to a given data product. Our contributions include a the specification of a framework to track data provenance and use it to derive quality information, b a model for data provenance based on the Open Provenance Model, and c a methodology to evaluate the quality of data based on its provenance. Our proposal is validated experimentally by a prototype that takes advantage of the Taverna workflow system.},
 author = {Joana E. Gonzales Malaverri and André Santanchè and Claudia Bauzer Medeiros},
 date = {2014-02-01},
 journal = {International Journal of Metadata, Semantics and Ontologies},
 keyword = {Data quality},
 link = {http://dl.acm.org/citation.cfm?id=2579580},
 number = {1},
 pages = {15-18},
 publisher = {Inderscience},
 title = {A provenance-based approach to evaluate data quality in eScience},
 volume = {9},
 year = {2014}
}


                    	

                        	
@mastersthesis{Miranda2013,
 abstract = {A large number of studies in biology, including those involving phylogenetic trees reconstruction, result in the production of a huge amount of data -- e.g., phenotype descriptions, morphological data matrices, phylogenetic trees, etc. Biologists increasingly face a challenge and opportunity of effectively discovering useful knowledge crossing and comparing several pieces of information, not always linked and integrated. In this work, we are interested in a specific biology context, in which biologists apply computational tools to build and share digital descriptions of living beings. We propose a process that departs from fragmentary data sources, which we map to graphs, towards a full integration of descriptions through ontologies. Graph databases mediate this evolvement process. They are less schema dependent and, since an ontology is also a graph, the mapping process from the initial graph towards an ontology becomes a sequence of graph transformations. Our motivation stems from the idea that transforming phenotypical descriptions in a network of relationships and looking for links among related elements will enhance the ability of solving more complex problems supported by machines. This work details the design principles behind our process and two practical implementations as proof of concept.},
 author = {Eduardo de Paula Miranda},
 date = {2013-11-22},
 keyword = {Mastersthesis},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2015/04/Eduardo-Miranda-M.-Sc.-Dissertation.pdf},
 school = {Instituto de Computação - Unicamp},
 title = {Linked biology — from phenotypes towardsphylogenetic trees},
 year = {2013}
}


                    	

                        	
@conference{Miranda2013b,
 abstract = {Characters are at the heart of the taxonomist’s tasks: discovering, describing, naming, comparing, characterizing new taxa, classifying them according to their phylogenetic relationships and studying their history, diversity and distribution. Taxonomic works result in the production of a huge amount of data (e.g., phenotype descriptions, morphological data matrices, etc.) stated in free-text format and digitally represented in many semi-structured standards, not often able to be interconnected. However, a semantic framework is needed for the integration of characters across studies, wherein ontologies are one of the promising choices to address this challenge. We face two challenges in this context: (i) how to relate several unconnected ontologies to be used in ontology-based descriptions; and (ii) how to map/reuse the huge amount of existing resources developed pre-ontologies. To address (i), we present a semantic representation of characters, with a unifying meta-model that can be superimposed over existing bio-ontologies, disciplining their relations and favoring their integration. Given the fact that converting taxonomic data in ontologies is not a straightforward task, to address (ii) we are implementing an intermediate step between semi-structured phenotypic descriptions and ontologies, based on graph databases. In the Semantic Web context, an ontology in RDF (Resource Description Framework) /OWL (Ontology Web Language) is essentially a graph where the nodes and relations are objects and properties following some class model. Texts and labels in natural language will appear as complementary documentation for human consumption. We mapped the SDD (Structured Descriptive Data) format to the graph model, remodeling semi-structured descriptions to a graph abstraction, in which the data are linked, enabling coupling phylogenetic trees and phenotype descriptions. Graph databases are less schema dependent and, since an ontology is also a graph, the mapping from the original graph towards an ontology becomes a sequence of graph transformations. This graph model was designed to be published on the Web in a Linked Data approach. Practical experiments are illustrated with the study of fossil ferns, using the programs Xper2 (for descriptions), which is compatible with the SDD standards, and LisBeth (for phylogenetics).},
 address = {Florença, Italy},
 author = {Eduardo Miranda and Anaıs Grand and Régine Vignes Lebbe and André Santanchè},
 date = {2013-11-01},
 keyword = {Conference},
 link = {https://mbgserv18.mobot.org/ocs/index.php/tdwg/2013/paper/view/404},
 publisher = {TDWG 2013 Annual Conference},
 title = {Coupling phenotype descriptions and phylogenetic trees: from SDD to ontologies via graph databases},
 year = {2013}
}


                    	

                        	
@conference{Cugler2013,
 abstract = {This paper addresses the problem of improving the quality of metadata in biological observation databases, in particular those associated with observations of living beings, and which are often used as a starting point for biodiversity analyses. Poor quality metadata lead to incorrect scientific conclusions, and can mislead experts in their analyses. Thus, it is important to design and develop methods to detect and correct metadata quality problems. This is a challenging problem because of the variety of issues concerning such metadata, e.g., misnaming of species, location uncertainty and imprecision concerning where observations were recorded. Related work is limited because it does not adequately model such issues. We propose a geographic approach based on expert-led classification of place and/or range mismatch anomalies detected by our algorithms. Our work is tested using a case study with the Fonoteca Neotropical Jacques Vielliard, one of the 10 largest animal sound collections in the world.},
 author = {Daniel Cintra Cugler and Claudia Bauzer Medeiros and Shashi Shekhar and Luís Felipe Toledo},
 booktitle = {9th IEEE International Conference on e-Science},
 date = {2013-10-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/escience.pdf},
 title = {A Geographical Approach for Metadata Quality Improvement in Biological Observation Databases},
 year = {2013}
}


                    	

                        	
@conference{Miranda2013b,
 abstract = {In life sciences, there are several biological datasets shared through the web. All this abundance of data carries a great opportunity to explore complex relationships among the diversity of species. However, their physical format varies from independent data files to databases, which are heterogeneous in model and representation, hampering their integration. Ontologies are one of the promising choices to address this challenge. However, the existing digital phenotypic descriptions are stored in semi-structured formats, making extensive use of natural language. If on one hand, this patrimony is highly relevant, on the other hand, converting it in ontologies is not a straightforward task. The present article addresses this problem adding an intermediate step between semi-structured phenotypic descriptions and ontologies. It remodels semi-structured descriptions to a graph abstraction in which the data are linked. Graph transformations subsidize the transition from semi-structured data representation to a more formalized representation through ontologies.},
 address = {Belo Horizonte, Brazil},
 author = {Eduardo Miranda and André Santanchè},
 date = {2013-09-22},
 keyword = {Conference},
 link = {http://ceur-ws.org/Vol-1041/ontobras-2013_paper50.pdf},
 pages = {12},
 publisher = {6th Brazilian Conference on Ontological Research},
 title = {Unifying Phenotypes to Support Semantic Descriptions},
 year = {2013}
}


                    	

                        	
@phdthesis{Koga2013,
 author = {Ivo Kenji Koga},
 date = {2013-09-01},
 keyword = {PhDThesis},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/2013-10-13-TESE-IvoKoga-v2.4.pdf},
 school = {Instituto de Computação - Unicamp},
 title = {An Event-Based Approach to Process Environmental Data},
 year = {2013}
}


                    	

                        	
@article{Jensen2013,
 author = {R. Jensen and M. Cruz and L. Gomes-Jr and M. Lopes},
 date = {2013-07-01},
 journal = {International Journal of Nursing Knowledge},
 keyword = {Journal Paper},
 link = {http://onlinelibrary.wiley.com/doi/10.1111/j.2047-3095.2013.01242.x/abstract;jsessionid=07EC6F2CE5BB23E7FD42179189538132.d02t04},
 title = {Attributing fuzzy values to nursing diagnoses and their elements: the specialists opinion.},
 year = {2013}
}


                    	

                        	
@conference{Gomes-Jr2013b,
 author = {L. Gomes-Jr, R. Jensen and A. Santanche},
 booktitle = {SLG/ICML 2013},
 date = {2013-07-01},
 keyword = {Conference},
 link = {http://www.ic.unicamp.br/~ra041475/docs/gomes-jr_et_al-slg-2013.pdf},
 title = {Query-based inferences in the Complex Data Management System},
 year = {2013}
}


                    	

                        	
@mastersthesis{Gomes2013,
 abstract = {The amount of scientific data, services and on-line tools available on the Web offer an unprecedented opportunity to conceive new kinds of laboratories blending resources. Existing experimental and collected data can substantiate asynchronous laboratories. Combined with mashup enabled software, it is possible to produce hybrid laboratories to confront, for example, synthetic simulations with observations. This work addresses this opportunity in the Education context through our metalaboratory, an authoring environment to produce laboratories by combining building blocks encapsulated in components. We introduce here the lab composition patterns and the active Web templates as fundamental mechanisms to support a lab authoring task. These laboratories can be embedded and mashed-up in Web documents. This work shows practical experiments of producing Web virtual and hybrid laboratories.},
 address = {Campinas - SP},
 author = {Alessandra da Silva Gomes},
 date = {2013-06-28},
 keyword = {Distance education, Educational technology, Environmental laboratories, Web laboratories},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2015/09/GomesAlessandradaSilva_M.pdf},
 school = {Instituto de Computação - Universidade Estadual de Campinas (UNICAMP)},
 title = {Web metalaboratory},
 year = {2013}
}


                    	

                        	
@mastersthesis{felipesilva,
 abstract = {Time series are sequences of values measured at successive time instants. They are used in several domains such as agriculture, medicine and economics. The analysis of these series is of utmost importance, providing experts the ability to identify trends and forecast possible scenarios. In order to facilitate their analyses, experts often associate annotations with time series. Such annotations can also be used to correlate distinct series, or look for specific series in a database. There are many challenges involved in managing annotations - from finding proper structures to associate them with series, to organizing and retrieving series based on annotations. This work contributes to the work in management of time series. Its main contributions are the design and development of a framework for the management of multiple annotations associated with one or multiple time series in a database. The framework also provides means for annotation versioning, so that previous states of an annotation are never lost. Serial Annotator is an application implemented for the Android smart phone platform. It has been used to validate the proposed framework and has been tested with real data involving agriculture problems.},
 author = {Felipe Henriques da Silva},
 date = {2013-06-10},
 keyword = {time series},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2015/08/SilvaFelipeHenriquesda_M.pdf},
 school = {Universidade Estadual de Campinas},
 title = {Serial Annotator : managing annotations of time series},
 year = {2013}
}


                    	

                        	
@phdthesis{Malaverri2013,
 abstract = {Data quality is a recurrent concern in all scientific domains. Experiments analyze and manipulate several kinds of datasets, and generate data to be (re)used by other experiments. The basis for obtaining good scientific results is highly associated with the degree of quality of such datasets. However, data involved with the experiments are manipulated by a wide range of users, with distinct research interests, using their own vocabularies, work methodologies, models, and sampling needs. Given this scenario, a challenge in computer science is to come up with solutions that help scientists to assess the quality of their data. Different efforts have been proposed addressing the estimation of quality. Some of these efforts outline that data provenance attributes should be used to evaluate quality. However, most of these initiatives address the evaluation of a specific quality attribute, frequently focusing on atomic data values, thereby reducing the applicability of these approaches. Taking this scenario into account, there is a need for new solutions that scientists can adopt to assess how good their data are. In this PhD research, we present an approach to attack this problem based on the notion of data provenance. Unlike other similar approaches, our proposal combines quality attributes specified within a context by pecialists and metadata on the provenance of a data set. The main contributions of this work are: (i) the specification of a framework that takes advantage of data provenance to derive quality information; (ii) a methodology associated with this framework that outlines the procedures to support the assessment of quality; (iii) the proposal of two different provenance models to capture provenance information, for fixed and extensible scenarios; and (iv) validation of items (i) through (iii), with their discussion via case studies in agriculture and biodiversity.},
 author = {Joana Esther Gonzales Malaverri},
 date = {2013-05-01},
 keyword = {PhDThesis},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/thesisJoana.pdf},
 school = {Instituto de Computação - Unicamp},
 title = {Supporting data quality assessment in eScience: a provenance based approach},
 year = {2013}
}


                    	

                        	
@mastersthesis{Longo2013,
 author = {João Sávio Ceregatti Longo},
 date = {2013-03-01},
 keyword = {Mastersthesis},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/master_thesis_final.pdf},
 school = {Instituto de Computação - Unicamp},
 title = {Management of integrity constraints for multi-scale geospatial data},
 year = {2013}
}


                    	

                        	
@conference{Gomes-Jr2013,
 abstract = {Accompanying the growth of the internet and the consequent diversification of applications and data processing needs, there has been a rapid proliferation of data and query models. While graph models such as RDF have been successfully used to integrate data from diverse origins, interaction with the integrated data is still limited by inflexible query models that cannot express concepts from multiple paradigms. In this paper we analyze data and query models typical of modern data-driven applications. We then propose an integrated query model aimed at covering a broad range of applications, allowing expressive queries that capture elements from diverse data models and querying paradigms. We employ graphs models to integrate data from structured and unstructured sources. We also reinterpret as graph analysis tasks several ranking metrics typical of information retrieval (IR) systems. The metrics allow flexible correlation of data elements based on topological properties of the underlying graph. The new query model is materialized in a query language named in* (in star). We present experiments with real data that demonstrate the expressiveness and practicability of our approach.},
 author = {Luiz Gomes-Jr and Rodrigo Jensen and André Santanchè},
 booktitle = {Second International Workshop on Querying Graph Structured Data},
 date = {2013-03-01},
 keyword = {Conference},
 title = {Towards query model integration: topology-aware, IR-inspired metrics for declarative graph querying},
 year = {2013}
}


                    	

                        	
@conference{Vilar2013,
 author = {Bruno S. C. M. Vilar and Claudia Bauzer Medeiros and André Santanchè},
 booktitle = {HEALTHINF - International Conference on Health Informatics},
 date = {2013-01-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/HealthInf-Biostec-2013.pdf},
 title = {Towards Adapting Scientific Workflow Systems to Healthcare Planning},
 year = {2013}
}


                    	

                        	
@conference{Malaverri2013c,
 abstract = {Data quality assessment is a key factor in data-intensive domains. The data deluge is aggravated by an increasing need for interoperability and cooperation across groups and organizations. New alternatives must be found to select the data that best satisfy users’ needs in a given context. This paper presents a strategy to provide information to support the evaluation of the quality of data sets. This strategy is based on combining metadata on the provenance of a data set (derived from workflows that generate it) and quality dimensions defined by the set’s users, based on the desired context of use. Our solution, validated via a case study, takes advantage of a semantic model to preserve data provenance related to applications in a specific domain.},
 author = {J. E. G. Malaverri and M. S. Mota and C. B. Medeiros},
 booktitle = {19th Americas Conference on Information Systems (AMCIS)},
 date = {2013-01-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/AMCIS2013_Paper_ProvToQual.pdf},
 title = {Estimating the quality of data using provenance: a case study in eScience},
 year = {2013}
}


                    	

                        	
@article{Malaverri2013,
 abstract = {Data quality is growing in relevance as a research topic. This is becoming increasingly crucial in data-intensive domains, e.g., stock market and financial studies, eHealth, or environmental research. Indeed, the data deluge characteristic of eScience applications has brought about new concerns along this direction. Quality assessment methods and models have been progressively incorporated in many business environments, as well as in software engineering practices. eScience environments, however, because of the many data source providers, kinds of scientific expertise needed, and multiple timeand- space scales involved in a given problem make it diffcult to assess data quality. This paper is concerned with the evaluation of the quality of data managed by eScience applications. Our approach is based on data provenance, i.e. the history of the origins and transformation processes applied to a given data product. Our contributions include: (i) the specification of a framework to track data provenance and use this information to derive quality information; (ii) a model for data provenance based on the Open Provenance Model; and (iii) a methodology to evaluate the quality of some digital artifact based on its provenance. Our proposal is validated experimentally by a prototype we developed that takes advantage of the Taverna work ow system.},
 author = {Joana E. Gonzales Malaverri and André Santanchè and Claudia Bauzer Medeiros},
 date = {2013-01-01},
 journal = {Int. J. Metadata, Semantics and Ontologies},
 keyword = {Article},
 title = {A Provenance-based Approach to Evaluate Data Quality in eScience},
 year = {2013}
}


                    	

                        	
@conference{Longo2013b,
 author = {João Sávio Ceregatti Longo and Claudia Bauzer Medeiros},
 booktitle = {25th International Conference on Scientific and Statistical Database Management (SSDBM)},
 date = {2013-01-01},
 keyword = {Conference},
 note = {Accepted},
 pages = {12},
 title = {Providing multi-scale consistency for multi-scale geospatial data},
 year = {2013}
}


                    	

                        	
@article{BERNARDO2013,
 abstract = {Spreadsheets are popular among users and organizations, becoming an essential data management tool. The easiness to handle spreadsheets associated with the creative freedom resulted in an increase in the volume of data available in this format. However, spreadsheets are not conceived to integrate data from distinct sources and challenges arise involving systematization of processes to reuse and combine their data. Many related initiatives address the problem of integrating data inside spreadsheets, focusing on lexical and syntactical aspects. However, the proper exploitation of the semantics related to this data is still an opportunity. In this sense, some related work propose mapping spreadsheets contents to open interoperability standards, mainly Semantic Web standards. The main limitation of such proposals is the assumption that it is possible to recognize and make explicit the schema and the semantics of spreadsheets automatically, regardless of their domain. This work differs from related work by assuming the essential role of the context – mainly the domain in which the spreadsheet was conceived – to delineate shared practices of the biology community, which establishes building patterns to be automatically recognized by our system, in a data extraction process and schema recognition. In this article, we present the result of a practical experiment involving such a system, in which we integrate hundreds of spreadsheets belonging to the biology domain and available on the Web. This integration was possible due to observation that the recognition of a spreadsheet nature can be achieved from its tabular organization.},
 author = {BERNARDO, I. R. and MOTA, M. S. and SANTANCHE, A.},
 date = {2013-01-01},
 journal = {Journal of Information and Data Management - JIDM},
 keyword = {Article},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/220-1058-1-PB.pdf},
 number = {2},
 pages = {104-114},
 title = {Extracting and Semantically Integrating Implicit Schemas from Multiple Spreadsheets of Biology based on the Recognition of their Nature},
 volume = {4},
 year = {2013}
}


                    	

                        	
@phdthesis{senra2012,
 abstract = {Information sharing has always been a key issue in any kind of joint effort. Paradoxically, with the data deluge, the more information available, the harder it is to design and implement solutions that effectively foster such sharing. This thesis analyzes distinct aspects of sharing - from eScience-related environments to personal information. As a result of this analysis, it provides answers to some of the problems encountered, along three axes. The first, SciFrame, is a specific framework that describes systems or processes involving scientific digital data manipulation, serving as a descriptive pattern to help system comparison. The adoption of SciFrame to describe distinct scientific virtual environments allows identifying commonalities and points for interoperation. The second axe contribution addresses the specific problem of communication between arbitrary systems and services provided by distinct database platforms, via the use of the so-called database descriptors or DBDs. These descriptors contribute to provide independence between applications and the services, thereby enhancing sharing across applications and databases. The third contribution, Organographs, provides means to deal with multifaceted information organization. It addresses problems of sharing personal information by means of exploiting the way we organize such information. Here, rather than trying to provide means to share the information itself, the unit of sharing is the organization of the information. By designing and sharing organographs, distinct groups provide each other dynamic, reconfigurable views of how information is organized, thereby promoting interoperability and reuse. Organographs are an innovative approach to hierarchical data management. These three contributions are centered on the basic idea of building and sharing hierarchical organizations. Part of these contributions was validated by case studies and, in the case of organographs, an actual implementation.},
 author = {Rodrigo Dias de Arruda Senra},
 date = {2012-12-10},
 keyword = {Personal Information Management},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2015/04/SenraRodrigoDiasArruda_D3.pdf},
 note = {Supervisor Claudia Bauzer Medeiros},
 school = {Institute of Computing, UNICAMP},
 title = {Organization is sharing : from eScience to personal information management},
 year = {2012}
}


                    	

                        	
@conference{Santanche2012,
 author = {André Santanchè and Claudia Bauzer Medeiros and Genevieve Jomier and Michel Zam},
 booktitle = {Proceeding of XIII Brazilian Symposium on Geoinformatics - GeoInfo},
 date = {2012-11-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/santancheetal2012-v02.pdf},
 pages = {1-10},
 title = {Challenges of the Anthropocene epoch - supporting multi-focus research},
 year = {2012}
}


                    	

                        	
@conference{Malaverri2012,
 abstract = {Data quality is a common concern in a wide range of domains. Since agriculture plays an important role in the Brazilian economy, it is crucial that the data be useful and with a proper level of quality for the decision making process, planning activities, among others. Nevertheless, this requirement is not often taken into account when different systems and databases are modeled. This work presents a review about data quality issues covering some efforts in agriculture and geospatial science to tackle these issues. The goal is to help researchers and practitioners to design better applications. In particular, we focus on the different dimensions of quality and the approaches that are used to measure them.},
 author = {Malaverri Joana E. G. and Medeiros Claudia B.},
 booktitle = {XIII Brazilian Symposium on GeoInformatics - GeoInfo},
 date = {2012-11-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/geoinfoJoana2012.pdf},
 title = {Data Quality in Agriculture Applications},
 year = {2012}
}


                    	

                        	
@conference{Bernardo2012b,
 abstract = {Spreadsheets are popular among users and organizations, becoming an essential data management tool. The ease of accessing associated with the creative freedom o?ered by spreadsheets resulted in the increase of the data volume available in this format. However, spreadsheets are not conceived for integration of data from distinct sources and challenges arise involving systematization of processes to reuse and combine their data. Many related initiatives address integration of data inside spreadsheets focusing on lexical and syntactical aspects, however, the exploration of the semantics related to these data is still an open challenge. In this sense, some related work propose mapping spreadsheets contents to open interoperability standards, mainly Semantic Web standards. The main limitation of such proposals is the assumption that it is possible to recognize and make explicit the schema and the semantics of spreadsheets automatically regardless of their domain. This work di?ers from related work by assuming the essential role of the context ? mainly the domain in which the spreadsheet was conceived ? to delineate shared practices of the community, which establishes building standards to be automatically recognized by our system, in a data extraction process and schema recognition. In this paper we present a result of a practical experiment involving such a system, in which we integrated data from hundreds of spreadsheets available on the Web. This integration was possible due to a unique ability of our approach of recognizing the spreadsheet nature, analyzed inside its creation context.},
 author = {Ivelize Rocha Bernardo and Matheus Silva Mota and André Santanchè},
 booktitle = {Simpósio Brasileiro de Banco de Dados (SBBD)},
 date = {2012-10-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/SBBD2012.pdf},
 title = {Extraindo e Integrando Semanticamente Dados de Múltiplas Planilhas Eletrônicas a Partir do Reconhecimento de Sua Natureza},
 year = {2012}
}


                    	

                        	
@mastersthesis{bernardo2012b,
 abstract = {A flexibilidade proporcionada por planilhas eletrônicas possibilita sua customização seguindo modelos mentais de seus autores e as tornam sistemas populares de gerenciamento de dados. Gradativamente tem crescido a necessidade de se integrar e articular dados de diferentes planilhas e, para que máquinas possam auxiliar neste processo, o desafio é como interpretar automaticamente o seu esquema implícito, que é dirigido à interpretação humana. Alguns trabalhos propõem o mapeamento do conteúdo das planilhas para padrões abertos de interoperabilidade, principalmente aqueles da Web Semântica. A principal limitação destes trabalhos consiste no pressuposto de que é possível reconhecer e explicitar os esquemas e a semântica das planilhas automaticamente, independentemente do seu domínio. Este trabalho se diferencia por considerar o contexto e o domínio em que foram concebidas as planilhas essenciais para se traçar o conjunto de práticas compartilhadas pela comunidade em questão, que estabelece padrões de construção a serem reconhecidos automaticamente por nosso sistema, em um processo de extração de dados e explicitação de esquemas. Nossa proposta envolve uma estratégia para caracterização de padrões de construção associados a modelos conceituais de autores na construção de planilhas, que é resultado de uma ampla pesquisa de práticas compartilhadas por autores de planilhas no domínio de uso da Biologia. Neste documento apresentamos o resultado de um experimento prático envolvendo tal sistema, no qual integramos os dados de centenas de planilhas eletrônicas disponíveis na Web. Tal integração foi possível pela capacidade única de nossa abordagem de reconhecer a natureza da planilha analisada dentro de seu contexto de criação.},
 address = {Campinas - SP},
 author = {Ivelize Rocha Bernardo},
 date = {2012-09-04},
 keyword = {Biologia - Processamento de dados, Planilhas eletrônicas, Recuperação da informação, Web semântica},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2015/09/BernardoIvelizeRocha_M.pdf},
 school = {Instituto de Computação - Universidade Estadual de Campinas (UNICAMP)},
 title = {Planilhas eletrônicas , Web semântica , Recuperação da informação , Biologia - Processamento de dados},
 year = {2012}
}


                    	

                        	
@conference{Koga2012,
 abstract = {Environmental monitoring studies present many challenges. A huge amount of data are provided in different formats from different sources (e.g. sensor networks and databases). This paper presents a framework we have developed to overcome some of these problems, based on combining aspects of Enterprise Service Bus (ESB) architectures and Event Processing mechanisms. First, we treat integration using ESB and then use event processing to transform, filter and detect event patterns, where all data arriving at a given point are treated uniformly as event streams. A case study concerning data streams of meteorological stations is provided to show the feasibility of this solution.},
 author = {Ivo Koga and Claudia Bauzer Medeiros},
 booktitle = {Proceedings VI eScience Workshop - XXXII Brazilian Computer Society Conference},
 date = {2012-07-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/CSBC-Workshop-eScience-Ivo-2012-06-06.pdf},
 title = {Integrating and processing events from Heterogeneous Data Sources},
 year = {2012}
}


                    	

                        	
@article{Cugler2012,
 abstract = {For decades, biologists around the world have recorded animal sounds. As the number of records grows, so does the difficulty to manage them, presenting challenges to save, retrieve, share and manage sounds. These challenges are complicated by the fact that animal sound recordings have specific peculiarities, associated to the context in which the sound was recorded. For example, sounds emitted by individuals that are in groups may be different from ones emitted by isolated individuals. Though these characteristics may be relevant to biologists, they are seldom explicit in the recording metadata. This paper discusses our ongoing research on management of sound recordings, considering factors such as environmental or social contexts, which are not treated by current systems. This work exploits retrieval based on context analysis. Query parameters include context variables that are dynamically derived using public services and ontologies associated with sound recording metadata. Part of the results have been validated through a web prototype, discussed in the text.},
 author = {Daniel Cintra Cugler and Claudia Bauzer Medeiros and Felipe Toledo},
 date = {2012-06-01},
 journal = {Concurrency and Computation - Practice and Experience},
 keyword = {Article},
 title = {An architecture for retrieval of animal sound recordings based on context variables},
 year = {2012}
}


                    	

                        	
@conference{deFedel2012,
 abstract = {Typical biodiversity information systems can only solve a small part of user concerns. Available query mechanisms are based on traditional textual database manipulations, combmining them with spatial correlations. However, experts need more complex computations – e.g., using non-textual data sources. This involves a considerable amount of manual tasks, to obtain the needed information. This paper presents the specification and implementation of Sinimbu – a framework to process multimodal queries that support both text and images as search parameters, for biodiversity studies, thus providing support for subsequent complex simulations. Sinimbu was validated with real data from our university’s Zoology Museum, which houses one of the largest zoological museum collections in Brazil. Not only can users interact with the system in several modes, but query possibilities (and answers) vary according to the user’s profile. Query processing in Sinimbu combines work in database management, image processing and ontology construction and management.},
 author = {Gabriel de S. Fedel and Claudia Bauzer Medeiros and Jefersson Alex dos Santos},
 booktitle = {COMPUTATIONAL SCIENCE AND ITS APPLICATIONS – ICCSA 2012},
 date = {2012-05-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/fedel_ICCSA2012.pdf},
 pages = {620-634},
 publisher = {LNCS},
 title = {Sinimbu - Multimodal queries to support biodiversity studies},
 volume = {7333/2012},
 year = {2012}
}


                    	

                        	
@mastersthesis{Mota2012,
 abstract = {Document production tools are present everywhere, resulting in an exponential growth of increasingly complex, distributed and heterogeneous documents. This hampers document exchange, as well as their annotation and retrieval. While information retrieval mechanisms concentrate on textual features (corpus analysis), annotation approaches either target specific formats or require that a document follows interoperable standards -- defined via schemas. This work presents our effort to handle these problems, providing a more flexible solution. Rather than trying to modify or convert the document itself, or to target only textual characteristics, the strategy described in this work is based on an intermediate descriptor -- the document shadow. A shadow represents domain-relevant aspects and elements of both structure and content of a given document. Shadows are not restricted to the description of textual features, but also concern other elements, such as multimedia artifacts. Furthermore, shadows can be stored in a database, thereby supporting queries on document structure and content, regardless document formats.},
 author = {Matheus Silva Mota},
 date = {2012-05-01},
 keyword = {Mastersthesis},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/DissertationMatheus.pdf},
 school = {Instituto de Computação - Unicamp},
 title = {Shadows: a new means of representing documents},
 year = {2012}
}


                    	

                        	
@mastersthesis{Alves2012,
 abstract = {Um número crescente de repositórios na web se baseiam em metadados na forma de rótulos (tags) para organizar e classificar o seu conteúdo. Os usuários destes sistemas associam livremente tags a recursos do sistema – e.g., URLs, imagens, marcadores. O termo folksonomia se refere a esta classificação coletiva, que emerge do processo de rotulação (tagging) realizado por usuários interagindo em ambientes sociais na web. Uma das maiores qualidades das folksonomias é a sua simplicidade de uso pela ausência de um vocabulário controlado. Folksonomias crescem de forma orgânica, refletindo o conhecimento da comunidade de usuários. Por outro lado, esta falta de estrutura leva a dificuldades em operações de organização e descoberta de conteúdo. Melhores resultados podem ser obtidos se forem consideradas as relações semânticas entre os rótulos. Por esta razão, vários trabalhos foram propostos com o objetivo de relacionar ontologias e folksonomias, combinando a estrutura sistematizada das ontologias à semântica latente das folksonomias. Enquanto em uma direção algumas abordagens criam “ontologias sociais” a partir dos dados das folksonomias, em outra direção algumas abordagens conectam rótulos a ontologias preexistentes. Em ambos os casos nota-se uma unidirecionalidade, ou seja, um modelo apenas dá suporte ao enriquecimento do outro. Nossa proposta, por outro lado, é bidirecional. Ontologias e folksonomias são fundidas em uma nova entidade, que chamamos de “ontologia folksonomizada”, combinando aspectos complementares de ambas. O conhecimento formal e projetado das ontologias é fundido com a semântica latente dos dados sociais. Nesta dissertação apresentamos nossa ontologia folksonomizada e seus desdobramentos. Nós introduzimos aqui um framework formal para a análise de trabalhos relacionados, a fim de confrontá-los com a nossa abordagem. Além das melhorias nas operações de indexação e descoberta, que foram validadas em experimentos práticos, nós propomos uma técnica chamada 3E Steps para dar suporte à evolução de ontologias usando dados de folksonomias. Nós também implementamos o protótipo de uma ferramenta para a construção de ontologias folksonomizadas e para dar suporte à revisão de ontologias.},
 author = {Hugo Augusto Alves},
 date = {2012-04-01},
 keyword = {Mastersthesis},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/Ontologias-Folksonomizadas.pdf},
 school = {Instituto de Computação - Unicamp},
 title = {Ontologias Folksonomizadas - Uma Abordagem para Fusão de Ontologias e Folksonomias},
 year = {2012}
}


                    	

                        	
@conference{Gatto2012,
 abstract = {Modern data analysis deeply relies on computational visualization tools, specially when spatial data is involved. Important efforts in governmental and private agencies are looking for patterns and insights buried in dispersive, massive amounts of data (conventional, spatiotemporal, etc.). In Visual Analytics users must be empowered to analyze data from different perspectives, integrating, transforming, aggregating and deriving new representations of conventional as well as spatial data. However, a challenge for visual analysis tools is how to articulate such wide variety of data models and formats, specially when multiple representations of geographic elements are involved. A usual approach is to convert data to a database - e.g., a multi-representation database - which centralizes and homogenizes them. This approach has restrictions when facing the dynamic and distributed model of the Web. In this paper we propose an on the fly and on demand multi-representation data integration and homogenization approach, named Lens, as an alternative that fits better with the Web. It combines a metamodel driven approach to transform data to a unifying multidimensional and multi-representation model, with a middleware-based architecture for seamless and on-the-fly data access, tailored to Visual Analytics.},
 author = {Sandro Danilo Gatto and André Santanchè},
 booktitle = {Proceedings of ICDE},
 date = {2012-03-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/PID2162539.pdf},
 publisher = {IEEE},
 title = {Multi-representation Lens for Visual Analytics},
 year = {2012}
}


                    	

                        	
@phdthesis{Nakai2012,
 abstract = {A distribuição de carga é um problema intrínseco a sistemas distribuídos. Esta tese aborda este problema no contexto de servidores web geograficamente distribuídos. A replicação de servidores web em \\emph{datacenters} distribuídos geograficamente provê tolerância a falhas e a possibilidade de fornecer melhores tempos de resposta aos clientes. Uma questão chave em cenários como este é a eficiência da solução de distribuição de carga empregada para dividir a carga do sistema entre as réplicas do servidor. A distribuição de carga permite que os provedores façam melhor uso dos seus recursos, amenizando a necessidade de provisão extra e ajudando a tolerar picos de carga até que o sistema seja ajustado. O objetivo deste trabalho foi estudar e propor novas soluções de distribuição de carga para servidores web geograficamente distribuídos. Para isso, foram implementadas duas ferramentas para apoiar a análise e o desenvolvimento de novas soluções, uma plataforma de testes construída sobre a implementação real de um serviço web e um software de simulação baseado em um modelo realístico de geração de carga para web. As principais contribuições desta tese são as propostas de quatro novas soluções de distribuição de carga que abrangem três diferentes tipos: soluções baseadas em DNS, baseadas em clientes e baseadas em servidores.},
 author = {Alan Massaru Nakai},
 date = {2012-01-01},
 keyword = {PhDThesis},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/tese_nakai2012_final.pdf},
 school = {Instituto de Computação - Unicamp},
 title = {Novas Técnicas de Distribuição de Carga para Servidores Web Geograficamente Distribuídos},
 year = {2012}
}


                    	

                        	
@conference{Mota2012b,
 abstract = {The Web is witnessing an exponential growth of increasingly complex, distributed and heterogeneous documents. This hampers document exchange, as well as their annotation and retrieval. While information retrieval mechanisms concentrate on textual features (corpus analysis), annotation approaches either target specific formats or require that a document follows interoperable standards. This work presents our effort to handle these problems, providing a more flexible solution. Rather than trying to modify or convert the document itself, or to target only textual characteristics, the strategy described in this work is based on an intermediate descriptor -- the document shadow. A shadow represents domain-relevant aspects and elements of both structure and content of a given document, as defined by a user group. Rather than annotating documents themselves, it is the shadows that are annotated, thereby providing independence between annotations and document formats. Our annotations take advantage of the LOD initiative. Via annotations users can derive correlations across shadows, in a flexible way. Moreover, shadows and annotations are stored in databases, therefore allowing uniform database treatments of heterogeneous documents.},
 author = {Matheus Silva Mota and Claudia Bauzer Medeiros},
 booktitle = {4th International Workshop on Data Engineering Meets the Semantic Web (DESWEB) -- co-located with 29th IEEE International Conference on Data Engineering (ICDE2013)},
 date = {2012-01-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/ICDEW13wkx_DESWEB_04.pdf},
 publisher = {IEEE},
 title = {Introducing Shadows: Flexible Document Representation and Annotation on the Web},
 year = {2012}
}


                    	

                        	
@conference{Malaverri2012b,
 abstract = {Geographic information is present in our daily lives. This pervasiveness is also at the origin of several problems, including heterogeneity and trustworthiness -- of the data sources, of the data providers, and of the data products derived from the original sources. Most efforts to improve this situation concentrate on establishing data collection and curation standards, and quality metadata. This paper extends these efforts by presenting an approach to assess quality of geospatial data based on provenance.},
 author = {Joana E. G. Malaverri and Claudia Bauzer Medeiros and Rubens Camargo Lamparelli},
 booktitle = {27th Symposium On Applied Computing (SAC)},
 date = {2012-01-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/artigo.pdf},
 title = {A Provenance Approach to Assess the Quality of Geospatial Data},
 year = {2012}
}


                    	

                        	
@conference{Longo2012,
 abstract = {Work on multi-scale issues concerning geospatial data presents countless challenges that have been long attacked by GIScience researchers. Indeed, a given real world problem must often be studied at distinct scales in order to be solved. Most implementation solutions go either towards generalization (and/or virtualization of distinct scales) or towards linking entities of interest across scales. In this context, the possibility of maintaining the history of changes at each scale is another factor to be considered. This paper presents our solution to these issues, which accommodates all previous research on handling multiple scales into a unifying framework. Our solution builds upon a specific database version model -- the multiversion MVDB -- which has already been successfully implemented in several geospatial scenarios, being extended here to support multi-scale research. The paper also presents our implementation of of a framework based on the model to handle and keep track of multi-scale data evolution.},
 author = {João Sávio C. Longo and Luís Theodoro O. Camargo and Claudia Bauzer Medeiros and André Santanchè},
 booktitle = {Advances in Conceptual Modeling},
 date = {2012-01-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/dbv_multi_scale_api_lis.pdf},
 pages = {284-293},
 publisher = {Springer-Verlag},
 title = {Using the DBV model to maintain versions of multi-scale geospatial data},
 volume = {7518},
 year = {2012}
}


                    	

                        	
@conference{Gomes2012,
 author = {Alessandra Gomes and André Santanchè},
 booktitle = {Anais do XI Workshop de Ferramentas e Aplicações - WebMedia},
 date = {2012-01-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/Paper-TaxonomicLab-Alessandra-Andre-WFA2012.pdf},
 title = {Web-based Lab For Taxonomic Description},
 year = {2012}
}


                    	

                        	
@conference{Bernardo2012,
 abstract = {Most of research data handled by biologists are in electronic spreadsheets. They became a popular technique to create data tables, which are easy to implement as isolated entities, but are inappropriate for integration with other spreadsheets or data sources and for enhanced queries, due to the informality of their implicit schemas. Several initiatives aim to interpret these implicit schemas of spreadsheets, making them explicit in order to drive the extraction and mapping of native data to open standards of interoperability. However, we observed limitations in such interpretation process, which is detached of the spreadsheet creation context. In this paper we present a strategy for characterizing spreadsheets, centered in their creation context, and we investigate how this characterization can be used to improve an automated interpretation and mapping of their respective schemas in the Biology usage domain. The strategy presented here is supporting a work in progress of a tool to automatically recognize spreadsheet schemas.},
 author = {Ivelize Rocha Bernardo and André Santanchè and Maria Cecília Calani Baranauskas},
 booktitle = {Simpósio Brasileiro de Sistemas de Informação (SBSI)},
 date = {2012-01-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/sbbd_shp_33.pdf},
 pages = {360-371},
 title = {Reconhecendo Padrões em Planilhas no domínio de uso da Biologia},
 year = {2012}
}


                    	

                        	
@conference{Alves2012b,
 address = {SWIM},
 author = {Hugo Alves and André Santanchè},
 booktitle = {4th International Workshop on Semantic Web Information Management},
 date = {2012-01-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/swim2012.pdf},
 title = {Abstract Framework for Social Ontologies and Folksonomized Ontologies},
 year = {2012}
}


                    	

                        	
@conference{Mota2011,
 abstract = {There are several approaches to extract geo-knowledge from documents and textual fields in databases. Most of them focus on detecting geographic evidence, from which the associated geographic location can be determined. This paper is based on a different premise -- geo-knowledge can be extracted even from non-geographic evidence, taking advantage of the linked data paradigm. The paper gives an overview of our approach and presents two case studies to extract geo-knowledge from documents and databases in the biodiversity domain.},
 author = {Matheus Silva Mota and João Sávio Ceregatti Longo and Daniel Cintra Cugler and Claudia Bauzer Medeiros},
 booktitle = {XII Brazilian Symposium on GeoInformatics - GeoInfo},
 date = {2011-11-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/paper.pdf},
 title = {Using linked data to extract geo-knowledge},
 year = {2011}
}


                    	

                        	
@conference{Mota2011b,
 abstract = {Document production tools are present everywhere, resulting in an exponential growth of increasingly complex, dis- tributed and heterogeneous documents. This hampers document exchange, as well as their annotation, indexing and retrieval. Existing approaches to these tasks either concentrate on specific formats or require representing document’s content using interoperable standards or schema. This work presents our effort to handle this problem. Rather than try- ing to modify or convert the document itself, our strategy defines an intermediate and interoperable descriptor – shadow – that summarizes key aspects and elements of a given document, improving its annotation, indexation and retrieval process regardless of its format. Shadows can be used with different purposes, from semantic annotations and context- sensitive annotations, to content indexation and clustering.},
 author = {Matheus Mota and Claudia Bauzer Medeiros},
 booktitle = {XI Workshop on Ongoing Thesis and Dissertations - WebMedia},
 date = {2011-10-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/paper-5.pdf},
 pages = {4},
 publisher = {SBC},
 title = {Shadow-driven Document Representation: A summarization-based strategy to represent non-interoperable documents},
 year = {2011}
}


                    	

                        	
@conference{Alves2011,
 abstract = {An ever-increasing number of web-based repositories aimed at sharing content, links or metadata rely on tags informed by users to describe, classify and organize their data. The term folksonomy has been used to define this "social taxonomy", which emerges from tagging carried by users interacting in social environments. It contrasts with the formalism and systematic creation process applied to ontologies. In our research we propose that ontologies and folksonomies have complementary roles. The knowledge systematically organized and formalized in ontologies can be enriched and contextualized by the implicit knowledge which emerges from folksonomies. This paper presents our approach to build a "folksonomized" ontology as a confluence of a formal ontology enriched with social knowledge extracted from folksonomies. The formal embodiment of folksonomies has been explored to empower content search and classification. On the other hand, ontologies are supplied with contextual data, which can improve relationship weighting and inference operations. The paper shows a tool we have implemented to produce and use folksonomized ontologies. It was used to attest that searching operations can be improved by this combination of ontologies with folksonomies.},
 author = {Hugo Alves and André Santanchè},
 booktitle = {Proceedings of XVII Brazilian Symposium on Multimedia and the Web},
 date = {2011-10-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/folksonomized-ontologies.pdf},
 title = {Folksonomized Ontologies - from social to formal},
 year = {2011}
}


                    	

                        	
@article{Koga2011,
 abstract = {eScience research, in computer science, concerns the development of tools, models and techniques to help scientists from other domains to develop their own research. One problem which is common to all fields is concerned with the management of heterogeneous data, offer- ing multiple interaction possibilities. This paper presents a proposal to help solve this problem, tailored to wireless sensor data – an im- portant data source in eScience. This proposal is illustrated with a case study.},
 author = {Ivo Koga and Claudia Bauzer Medeiros and Omar Branquinho},
 date = {2011-09-01},
 journal = {Journal of Computational Interdisciplinary Sciences (JCIS)},
 keyword = {Article},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/2011-09-20-publicado-JCIS-v2n1a02.pdf},
 note = {J. Comp. Int. Sci., Volume 2, Issue 1, 2011, 13-22, pdn: jcis.2011.02.01.0028 © copyright 2011 PACIS [http://epacis.net/jcis.php]},
 number = {1},
 pages = {13-22},
 title = {Handling and Publishing Wireless Sensor Network Data: a hands-on experiment},
 volume = {2},
 year = {2011}
}


                    	

                        	
@article{Jomier2011,
 abstract = {This paper is concerned with discussing issues associated with the emerging paradigm of collaborative scientific environments on the Web, and on challenges facing teams with complementary expertise, who work across the Web. The emphasis is on the multiple focuses in which these groups attack a problem, and how this can be approached from a spatio-temporal database perspective.},
 author = {Genevieve Jomier and Claudia Bauzer Medeiros and Andre Santanche},
 date = {2011-07-01},
 journal = {Proc. II Workshop of the INCT on Web Science},
 keyword = {Article},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/INCT-WEB2011.pdf},
 note = {Paper presented at the II Workshop at the Brazilian Institute of Web Science},
 title = {The Multi-focus approach: multidisciplinary cooperations on the Web (Position paper)},
 year = {2011}
}


                    	

                        	
@conference{Cugler2011,
 abstract = {For decades, biologists around the world have recorded animal sounds. As the number of records grows, so does the difficulty to manage them, presenting challenges to save, retrieve, share and manage the sounds. This paper presents our preliminary results concerning management of large volumes of animal sound data. The paper also provides an overview from our prototype, an online environment focused on management of this data. This paper also discusses our case study, concerning more than 1 terabyte of animal recordings from Fonoteca Neotropical Jacques Vielliard, at UNICAMP, Brazil.},
 author = {Daniel Cintra Cugler and Claudia Bauzer Medeiros and Luís Felipe Toledo},
 booktitle = {Proceedings V eScience Workshop - XXXI Brazilian Computer Society Conference},
 date = {2011-07-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/CSBC.pdf},
 title = {Managing Animal Sounds - Some Challenges and Research Directions},
 year = {2011}
}


                    	

                        	
@conference{Senra2011,
 abstract = {The data deluge of information in the Web challenges internauts to organize their references to interesting content in theWeb as well as in their private storage space off-line. Having an automatically managed personal index to content acquired from theWeb is useful for everybody, but critical to researchers and scholars. In this paper, we discuss concepts and problems related to organizing information through multi-faceted hierarchical categorization. We introduce the organograph as a mechanism to specify multiple views of how content is organized. Organographs can help scientists to automatically organize their documents along multiple axes, improving sharing and navigation through themes and concepts according to a particular research objective.},
 author = {Rodrigo Dias Arruda Senra and Claudia Bauzer Medeiros},
 booktitle = {Proceedings WEBIST - 7th International Conference on Web Information Systems},
 date = {2011-05-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/WebOrganization.pdf},
 publisher = {INSTICC},
 title = {ORGANOGRAPHS Multi-faceted Hierarchical Categorization of Web Documents},
 year = {2011}
}


                    	

                        	
@conference{Nakai2011,
 abstract = {The replication of a web service over geographically distributed locations can improve the QoS perceived by its clients. An important issue in such a deployment is the efficiency of the policy applied to distribute client requests among the replicas. In this paper, we propose a new approach for client-based load distribution that adaptively changes the fraction of load each client submits to each service replica to try to minimize overall response times. Our results show that the proposed strategy can achieve better response times than algorithms that eagerly try to choose the best replica for each client.},
 author = {Alan Massaru Nakai and Edmundo Madeira and Luiz E. Buzato},
 booktitle = {XXIX Simpósio Brasileiro de Redes de Computadores e Sistemas Distribuídos (Aceito para apresentação)},
 date = {2011-05-01},
 keyword = {Conference},
 note = {Aceito para apresentação},
 title = {Improving the QoS of Web Services via Client-Based Load Distribution},
 year = {2011}
}


                    	

                        	
@mastersthesis{deFedel2011,
 abstract = {A pesquisa em computação aplicada à biodiversidade apresenta muitos desafios, como a existência de grande quantidade de dados e sua heterogeneidade e variedade. As ferramentas de busca disponíveis para tais dados ainda são limitadas e normalmente só consideram dados textuais, deixando de explorar a potencialidade da busca por dados de outra natureza, como imagens ou sons. O objetivo deste projeto é analisar os problemas de realizar consultas multimodais com texto e imagem para o domínio de biodiversidade, propondo um conjunto de ferramentas para processar tais consultas. Espera-se que com esta busca integrada a recuperação dos dados de biodiversidade se torne mais abrangente, auxiliando os pesquisadores em biodiversidade em suas tarefas, além de incentivar que usuários leigos acessem esses dados. Este trabalho está inserido no projeto BioCORE, uma parceria entre pesquisadores de computação e biologia para aperfeiçoar a pesquisa em biodiversidade.},
 author = {Gabriel de Souza Fedel},
 date = {2011-04-01},
 keyword = {Mastersthesis},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/dissertacao2.pdf},
 school = {Instituto de Computação - Unicamp},
 title = {Busca multimodal para apoio à pesquisa em biodiversidade},
 year = {2011}
}


                    	

                        	
@conference{Nakai2011b,
 abstract = {The Internet has become the universal support for computer applications. This increases the need for solutions that provide dependability and QoS for web applications. The replication of web servers on geographically distributed datacenters allows the service provider to tolerate disastrous failures and to improve the response times perceived by clients. A key issue for good performance of worldwide distributed web services is the efficiency of the load balancing mechanism used to distribute client requests among the replicated servers. Load balancing can reduce the need for over-provision of resources, and help tolerate abrupt load peaks and/or partial failures through load conditioning. In this paper, we propose a new load balancing solution that reduces service response times by redirecting requests to the closest remote servers without overloading them. We also describe a middleware that implements this protocol and present the results of a set of simulations that show its usefulness.},
 author = {Alan Massaru Nakai and Edmundo Madeira and Luiz E. Buzato},
 booktitle = {Proceedings of the 5th Latin-American Symposium on Dependable Computing},
 date = {2011-04-01},
 keyword = {Conference},
 title = {Load Balancing for Internet Distributed Services using Limited Redirection Rates},
 year = {2011}
}


                    	

                        	
@conference{eSantanche2011,
 author = {Alessandra Gomes and André Santanchè},
 booktitle = {Anais do X Workshop de Ferramentas e Aplicações - WebMedia},
 date = {2011-01-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/autoria-virtual-baseada-em-dados-do-mundo-real.pdf},
 title = {Autoria Virtual Baseada no Mundo Real},
 year = {2011}
}


                    	

                        	
@conference{dAraujoeSantanche2011,
 author = {Taluna Mendes d'Araújo Costa and André Santanchè},
 booktitle = {Anais do V Simpósio Brasileiro de Componentes, Arquiteturas e Reutilização de Software},
 date = {2011-01-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/anotacao-semantica-codigo1.pdf},
 title = {Padrão de Anotação Semântica de Código e sua Aplicação no Desenvolvimento de Componentes},
 year = {2011}
}


                    	

                        	
@article{Medeiros2011,
 abstract = {This article presents an overview of the research conducted at the Laboratory of Information Systems (LIS) at the Institute of Computing, UNICAMP. Its creation, in 1994, was motivated by the need to support data-driven research within multidisciplinary projects involving computer scientists and scientists from other fields. Throughout the years, it has housed projects in many domains - in agriculture, biodiversity, medicine, health, bioinformatics, urban planning, telecommunications, and sports - with scientific results in these fields and in Computer Science, with emphasis in data management, integrating research on databases, image processing, human-computer interfaces, software engineering and computer networks. The research produced 14 PhD theses, 70 MSc dissertations, 40$+$ journal papers and 200$+$ conference papers, having been assisted by over 80 undergraduate student scholarships. Several of these results were obtained through cooperation with many Brazilian universities and research centers, as well as groups in Canada, USA, France, Germany, the Netherlands and Portugal. The authors of this article are faculty at the Institute whose students developed their MSc or PhD research in the lab. For additional details, online systems, papers and reports, see http://www.lis.ic.unicamp.br and http://www.lis.ic.unicamp.br/publications},
 author = {Claudia Bauzer Medeiros and Andre Santanche and Edmundo Madeira and Eliane Martins and Geovane Magalhaes and Maria Cecilia Baranauskas and Neucimar Leite and Ricardo da Silva Torres},
 date = {2011-01-01},
 journal = {JIDM},
 keyword = {Article},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/Versao-FINAL.pdf},
 number = {2},
 pages = {93-108},
 title = {Data Driven Research at LIS: the Laboratory of Information Systems at UNICAMP},
 volume = {2},
 year = {2011}
}


                    	

                        	
@article{Mariote2011,
 abstract = {Sensor networks have increased the amount and variety of temporal data available, requiring the definition of new techniques for data mining. Related research typically addresses the problems of indexing, clustering, classification, summarization, and anomaly detection. There is a wide range of techniques to describe and compare time series, but they focus on series’ values. This paper concentrates on a new aspect—that of describing oscillation patterns. It presents a technique for time series similarity search, and multiple temporal scales, defining a descriptor that uses the angular coefficients from a linear segmentation of the curve that represents the evolution of the analyzed series. This technique is generalized to handle co-evolution, in which several phenomena vary at the same time. Preliminary experiments with real datasets showed that our approach correctly characterizes the oscillation of single time series, for multiple time scales, and is able to compute the similarity among sets of co-evolving series.},
 author = {Leonardo Mariote and Claudia Bauzer Medeiros and Ricardo da Silva Torres and Lucas M. Bueno},
 date = {2011-01-01},
 journal = {Geoinformatica},
 keyword = {Article},
 pages = {75-109},
 title = {TIDES—a new descriptor for time series oscillation behavior},
 volume = {15},
 year = {2011}
}


                    	

                        	
@conference{Carromeu2010,
 abstract = {There is a growing demand for accurate information about the real environmental impact caused by cattle, accompanied by a concern for increased production of cattle related products in a sustainable manner. With the widespread adoption of RFID chips for bovine traceability and new technologies for measuring carbon dioxide in the atmosphere, it is now feasible to develop carbon cycle models that combine such factors. This presents challenges that range from data management to model specification and validation, to correlate animal movements and their impact on different biomes. This paper presents a proposal towards this goal, concerned with the creation of a framework to store and index semantic space trajectories of livestock to enable monitoring of the production of CO2.},
 author = {Camilo Carromeu and Claudia Bauzer Medeiros},
 booktitle = {Proc. GeoChange 2010 - Research Symposium GIScience for Environmental Change},
 date = {2010-11-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/camilo-geochange_2010.pdf},
 title = {Spatial Monitoring of Cattle – Impact on the Carbon Cycle},
 year = {2010}
}


                    	

                        	
@conference{deFedel2010,
 author = {Gabriel de Souza Fedel and Claudia Bauzer Medeiros},
 booktitle = {WTDBD - Workshop de Teses e Dissertações em Bancos de Dados},
 date = {2010-10-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/ArtigoWTDBD2010.pdf},
 title = {Busca multimodal para apoio à pesquisa em biodiversidade},
 year = {2010}
}


                    	

                        	
@conference{Malaverri2010,
 abstract = {One of the concerns in eScience research is the design and development of novel solutions to support distributed collaboration. In this context, regardless of the scientific domain, an important problem is the reproducibility of the results from scientific activities, considering the heterogeneous data involved and the specific research context. This paper presents a proposal to help solve this problem, proposing a software architecture to handle provenance issues.},
 author = {Joana E. Gonzales Malaverri and Claudia Bauzer Medeiros},
 booktitle = {Workshop on Challenges in eScience (CIS)},
 date = {2010-10-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/joanaCIS_CamRea.pdf},
 title = {Handling Provenance in Biodiversity},
 year = {2010}
}


                    	

                        	
@conference{Santanche2010b,
 address = {Zurich, Switzerland},
 author = {André Santanchè and Peter Baumann},
 booktitle = {GIScience 2010},
 date = {2010-09-01},
 keyword = {Conference},
 title = {Component-based Web Clients For Scientific Data Exploration Using The DCC Framework},
 year = {2010}
}


                    	

                        	
@conference{Koga2010,
 abstract = {eScience research, in computer science, concerns the development of tools, models and techniques to help scientists from other domains to develop their own research. One problem which is common to all is concerned with management of heterogeneous data offering multiple interaction possibilities. This paper presents a proposal to help solve this problem, tailored to wireless sensor data – an important data source in eScience. This proposal is illustrated with a case study.},
 author = {Ivo Koga and Claudia Bauzer Medeiros and Omar Branquinho},
 booktitle = {Proceedings IV eScience Workshop - XXX Brazilian Computer Society Conference},
 date = {2010-07-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/CSBC-eScience2010.pdf},
 publisher = {SBC},
 title = {Handling and Publishing Wireless Sensor Network Data: a hands-on experiment},
 year = {2010}
}


                    	

                        	
@conference{dosSantos2010b,
 abstract = {Classifying Remote Sensing Images (RSI) is a hard task. There are automatic approaches whose results normally need to be revised. The identification and polygon extraction tasks usually rely on applying classification strategies that exploit visual aspects related to spectral and texture patterns identified in RSI regions. There are a lot of image descriptors proposed in the literature for content-based image retrieval purposes that can be useful for RSI classification. This paper presents a comparative study to evaluate the potential of using successful color and texture image descriptors for remote sensing retrieval and classification. Seven descriptors that encode texture information and twelve color descriptors that can be used to encode spectral information were selected. We perform experiments to evaluate the effectiveness of these descriptors, considering image retrieval and classification tasks. To evaluate descriptors in classification tasks, we also propose a methodology based on KNN classifier. Experiments demonstrate that Joint Auto-Correlogram (JAC), Color Bitmap, Invariant Steerable Pyramid Decomposition (SID) and Quantized Compound Change Histogram (QCCH) yield the best results.},
 address = {Angers, France},
 author = {Jefersson Alex dos Santos and Otávio A. B. Penatti and Ricardo da Silva Torres},
 booktitle = {Proceedings of International Conference on Computer Vision Theory and Applications (VISAPP 2010)},
 date = {2010-05-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/visapp2010.pdf},
 title = {Evaluating the Potential of Texture and Color Descriptors for Remote Sensing Image Retrieval and Classification},
 year = {2010}
}


                    	

                        	
@mastersthesis{deSousa2010,
 abstract = {Geographic information systems (GIS) are increasingly using geospatial data from the Web to produce geographic information. One big challenge is to find the relevant data, which often is based on keywords or even file names. However, these approaches lack semantics. Thus, it is necessary to provide mechanisms to prepare data to help retrieval of semantically relevant data. To attack this problem, this dissertation proposes a servicebased architecture to manage semantic annotations. In this work, a semantic annotation is a set of triples - called semantic annotation units - < subject,metadata field, object >, where subject is a geospatial resource, (metadata field) contains some characteristic about this resource, and object is an ontology term that semantically associates the metadata field to some appropriate concept. The main contributions of this dissertation are: a comparative study on annotation tools; specification and implementation of a service-based architecture to manage semantic annotations, including services for handling ontology terms; and a comparative analysis of mechanisms for storing semantic annotations. The work takes as case study semantic annotations about agricultural resources.},
 author = {Sidney Roberto de Sousa},
 date = {2010-03-01},
 keyword = {Mastersthesis},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/DissertacaoSidney.pdf},
 school = {Instituto de Computação - Unicamp},
 title = {Management of Semantic Annotations of Data on the Web for Agricultural Applications (partially in english)},
 year = {2010}
}


                    	

                        	
@conference{Penatti2010,
 abstract = {This paper presents Eva, a tool for evaluating image descriptors for content-based image retrieval. Eva integrates the most common stages of an image retrieval process and provides functionalities to facilitate the comparison of image descriptors in the context of content-based image retrieval. Eva supports the management of image descriptors and image collections and creates a standardized environment to run comparative experiments using them.},
 author = {Otávio Augusto Bizetto Penatti and Ricardo da Silva Torres},
 booktitle = {11th ACM SIGMM International Conference on Multimedia Information Retrieval},
 date = {2010-03-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/mir106o-penatti.pdf},
 title = {Eva - An Evaluation Tool for Comparing Descriptors in Content-Based Image Retrieval Tasks},
 year = {2010}
}


                    	

                        	
@conference{Faria2010b,
 abstract = {In Content-based Image Retrieval (CBIR), accurately ranking the returned images is of paramount importance, since users consider mostly the topmost results. The typical ranking strategy used by many CBIR systems is to employ image content descriptors, so that returned images that are most similar to the query image are placed higher in the rank. While this strategy is well accepted and widely used, improved results may be obtained by combining multiple image descriptors. In this paper we explore this idea, and introduce algorithms that learn to combine information coming from different descriptors. The proposed learning to rank algorithms are based on three diverse learning techniques: Support Vector Machines (CBIR-SVM), Genetic Programming (CBIR-GP), and Association Rules (CBIR-AR). Eighteen image content descriptors (color, texture, and shape information) are used as input and provided as training to the learning algorithms. We performed a systematic evaluation involving two complex and heterogeneous image databases (Corel e Caltech) and two evaluation measures (Precision and MAP). The empirical results show that all learning algorithms provide significant gains when compared to the typical ranking strategy in which descriptors are used in isolation. We concluded that, in general, CBIR-AR and CBIR-GP outperforms CBIR-SVM. A fine-grained analysis revealed the lack of correlation between the results provided by CBIR-AR and the results provided by the other two algorithms, which indicates the opportunity of an advantageous hybrid approach.},
 author = {Faria F. A. and Veloso, A. and Valle E. and Torres R. and Gonçalves and Meira W.},
 booktitle = {ACM International Conference on Multimedia Information Retrieval (MIR 2010)},
 date = {2010-03-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/mir067-faria.pdf},
 title = {Learning to Rank for Content-Based Image Retrieval},
 year = {2010}
}


                    	

                        	
@mastersthesis{Faria2010,
 abstract = {Ténicas de aprendizagem vêm sendo empregadas em diversas áreas de aplicação (medicina, biologia, seguran ̧a, entre outras). Neste trabalho, buscou-se avaliar o uso da técnica de Programação Genética (PG) em tarefas de recuperação e classificação imagens. PG busca soluções ó́timas inspirada pela teoria de seleção natural das espécies. Indivíduos mais aptos (melhores soluções) tendem a evoluir e se reproduzir nas gerações futuras.},
 author = {Fábio Augusto Faria},
 date = {2010-03-01},
 keyword = {Mastersthesis},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/fabio_faria.pdf},
 school = {Instituto de Computação - Unicamp},
 title = {Uso de Técnicas de Aprendizagem para Classificação e Recuperação de Imagens},
 year = {2010}
}


                    	

                        	
@article{mejojovu10,
 abstract = {Sensor data on traffic events have prompted a wide range of research issues, related
with the so-called ITS (Intelligent Transportation Systems). Data are delivered for
both static (fixed) and mobile (embedded) sensors, generating large and complex spatiotemporal series. This scenario presents several research challenges, in spatio-temporal data management and data analysis. Management issues involve, for instance, data cleaning and data fusion to support queries at distinct spatial and temporal granularities. Analysis issues
include the characterization of traffic behavior for given space and/or time windows, and
detection of anomalous behavior (either due to sensor malfunction, or to traffic events).

This paper contributes to the solution of some of these issues through a new kind of
framework to manage static sensor data. Our work is based on combining research on analytical methods to process sensor data, and data management strategies to query these data. The first component is geared towards supporting pattern matching. This leads to a model to study and predict unusual traffic behavior along an urban road network. The second component deals with spatio-temporal database issues, taking into account information produced by the model. This allows distinct granularities and modalities of analysis of sensor data in space and time. This work was conducted within a project that uses real data, with tests
conducted on 1000 sensors, during 3 years, in a large French city.},
 author = {C. B. Medeiros and M. Joliveau and G. Jomier and F. de Vuyst},
 date = {2010-02-28},
 journal = {Geoinformatica},
 keyword = {sensor data, time series, traffic management},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2016/09/MedeirosJoliveauJomierDeVuyst.pdf},
 number = {3},
 pages = {279-305},
 title = {Managing sensor traffic data and forecasting unusual behaviour propagation},
 volume = {14},
 year = {2010}
}


                    	

                        	
@conference{Macario2010,
 address = {Zurich, Switzerland},
 author = {Carla Geovana N. Macário and Jefersson A. dos Santos and Claudia Bauzer Medeiros and Ricardo da S. Torres},
 booktitle = {6th Workshop on Geographic Information Retrieval (GIR'10)},
 date = {2010-02-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/acmGIR.pdf},
 title = {Annotating data to support decision-making: a case study},
 year = {2010}
}


                    	

                        	
@article{dosSantos2010,
 abstract = {This paper presents an interactive technique for remote sensing image classification. In our proposal, users are able to interact with the classification system, indicating regions of interest (and those which are not). This feedback information is employed by a genetic programming approach to learn user preferences and combine image region descriptors that encode spectral and texture properties. Experiments demonstrate that the proposed method is effective for image classification tasks and outperforms some recent and effective as well as traditional baselines for the problem.},
 author = {Jefersson A. dos Santos and Cristiano D. Ferreira and Ricardo da S. Torres and Marcos A. Gonçalvez and Rubens A. C. Lamparelli},
 date = {2010-01-01},
 journal = {Information Sciences},
 keyword = {Article},
 note = {Accepted for publication},
 title = {A Relevance Feedback Method based on Genetic Programming for Classification of Remote Sensing Images},
 year = {2010}
}


                    	

                        	
@article{Santanche2010,
 author = {André Santanchè and Luiz Augusto Matos da Silva},
 date = {2010-01-01},
 journal = {Learning Technology Newsletter},
 keyword = {Article},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/ieeetclt2009-v10.pdf},
 number = {1},
 pages = {58-61},
 title = {Document-centered Learning Object Authoring},
 volume = {12},
 year = {2010}
}


                    	

                        	
@conference{Nakai2010,
 abstract = {A key issue for good performance of geographically replicated web services is the efficiency of the load balancing mechanism used to distribute client requests among the replicas. This work revisits the research on DNS-based load balancing mechanisms considering a SOA (Service-Oriented Architecture) scenario. In this kind of load balancing solution the Authoritative DNS (ADNS) of the distributed web service performs the role of the client request scheduler, redirecting the clients to one of the server replicas, according to some load distribution policy. This paper proposes a new policy that combines client load information and server load information in order to reduce the negative effects of the DNS caching on the load balancing. We also present the results obtained through an experimental tesbed built on basis of the TPC-W benchmark},
 author = {Alan Nakai and Edmundo Madeira and Luiz Eduardo Buzato},
 booktitle = {Webist 2010},
 date = {2010-01-01},
 keyword = {Conference},
 title = {DNS-based Load Balancing for Web Services},
 year = {2010}
}


                    	

                        	
@conference{Medeiros2010,
 abstract = {The growth of the Internet has dramatically changed the way information is accessed and managed. The Web contains an ever growing amount of distributed, semi-structured and uncontrolled data. In this new context, we should rethink how applications couple with DBMSs. Corporate intranets allowed a tiered coupling between applications and databases. However, that model is still too constrained, and unable to accommodate the hostility, unsafety and fast pace of the Web environment. Web Applications soon, if not already, will seek to dynamically negotiate their relationship to distributed database services. Prior to accomplishing autonomous application_to_DBMS binding and seamless data migration, we need to devise a "lingua franca" to request and describe DBMS and database services and capabilities. Database descriptors (DBDs) are a step towards this vision. This paper presents the motivation for DBDs, their structure and architecture, examples and a use case scenario.},
 author = {Rodrigo Dias Arruda Senra and Claudia Bauzer Medeiros},
 booktitle = {17th IEEE International Conference and Workshops on the Engineering of Computer-Based Systems},
 date = {2010-01-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/05457746.pdf},
 pages = {386-392},
 title = {Database Descriptors: Laying the Path to Commodity Web Data Services},
 year = {2010}
}


                    	

                        	
@conference{Malaverri2010b,
 address = {CIS},
 author = {Joana E. Gonzales Malaverri and Claudia Bauzer Medeiros},
 booktitle = {Workshop Challenges in eScience},
 date = {2010-01-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/CIS-painel-1-Joana.ppt},
 title = {Handling Provenance in Biodiversity},
 year = {2010}
}


                    	

                        	
@article{Jr2010,
 abstract = {Scientific research is producing and consuming large volumes of multimedia data at an ever growing rate. Data annotations are used, among others, to provide context information and enhance content management, making it easier to interpret and share data. However, raw multimedia data often needs to go through complex processing steps before it can be consumed. During these transformation processes, original annotations from the production phase are often discarded or ignored, since their usefulness is usually limited to the first transformation step. New annotations must be made at each step, and associated with the final product, a time consuming task often carried out manually. The task of systematically associating new annotations to the result of each data transformation step is known as annotation propagation. This paper introduces techniques for structuring and propagating annotations, in parallel to the data transformation processes, thereby alleviating the overhead and decreasing the errors introduced by manual annotation. This helps the construction of new annotated multimedia data sets, preserving contextual information. The solution is based on: (i) the notion of semantic annotations; (ii) a set of transformations rules, based on ontological relations; and, (iii) workflows that deal with interrelated processing steps.},
 author = {Gilberto Zonta Pastorello Jr and Jaudete Daltio and Claudia Bauzer Medeiros},
 date = {2010-01-01},
 journal = {Journal of Multimedia},
 keyword = {Article},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/pastorellojr-daltio-medeiros_jmm2009_final.pdf},
 note = {Accepted for publication},
 title = {A Mechanism for Propagation of Semantic Annotations of Multimedia Content},
 year = {2010}
}


                    	

                        	
@techreport{dosSantos2009b,
 abstract = {Classifying Remote Sensing Images (RSI) is a hard task. There are automatic approaches whose results normally need to be revised. The identification and polygon extraction tasks usually rely on applying classification strategies that exploit visual aspects related to spectral and texture patterns identified in RSI regions. There are a lot of image descriptors proposed in the literature for content-based image retrieval purposes that can be useful for RSI classification. This paper presents a comparative study to evaluate the potential of using successful color and texture image descriptors for remote sensing retrieval and classification. Seven descriptors that encode texture information and twelve color descriptors that can be used to encode spectral information were selected. We highlight the main characteristics and perform experiments to evaluate the effectiveness of these descriptors. To evaluate descriptors in classification tasks, we also proposed a methodology based on KNN classifier. Experiments demonstrate that Joint Auto-Correlogram (JAC), Color Bitmap, Invariant Steerable Pyramid Decomposition (SID) and Quantized Compound Change Histogram (QCCH) yield the best results.},
 author = {Jefersson Alex dos Santos and Otávio A. B. Penatti and Ricardo da Silva Torres},
 date = {2009-12-01},
 institution = {Institute of Computing, State University of Campinas},
 keyword = {Techreport},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/09-47.pdf},
 number = {IC-09-47},
 title = {Evaluating the Potential of Texture and Color Descriptors for Remote Sensing Image Retrieval and Classification},
 type = {Technical Report},
 year = {2009}
}


                    	

                        	
@phdthesis{doMacario2009,
 author = {Carla Geovana do Nascimento Macário},
 date = {2009-12-01},
 keyword = {PhDThesis},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/cap2.pdf},
 school = {Instituto de Computação - Unicamp},
 title = {Semantic Annotation of Geospatial Data (Anotação Semântica de Dados Geoespaciais)},
 year = {2009}
}


                    	

                        	
@conference{Nakai2009,
 author = {Alan Nakai and Edmundo Madeira and Luiz Eduardo Buzato},
 booktitle = {2nd IEEE International Workshop on Internet and Distributed Computing Systems (IDCS'09)},
 date = {2009-12-01},
 keyword = {Conference},
 title = {Lab4WS: A Testbed for Web Services},
 year = {2009}
}


                    	

                        	
@mastersthesis{Gil2009,
 author = {Fabiana Bellette Gil},
 date = {2009-12-01},
 keyword = {Mastersthesis},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/Dissertacao_FabianaBelletteGil.pdf},
 school = {Instituto de Computação - Unicamp},
 title = {Serviço Web para Anotação de Dados Geográficos Vetoriais e sua Aplicação em Sistemas de Informação de Biodiversidade},
 year = {2009}
}


                    	

                        	
@phdthesis{Baccarin2009,
 abstract = {An agricultural supply chain comprises several kinds of actors that establish a complex net of relationships. These relationships may range from ad hoc and short lasting ones to highly structured and long lasting. This kind of chain has a few particularities like strict regulations and cultural influences, and presents a quite relevant economical and social importance. Contracts are the natural way of expressing relationships among members of a chain. Thus, the contracts and the activity of negotiating them are of major importance within a supply chain. This thesis proposes a model for agricultural supply chains that integrates seamlessly their main features, including their structure and their dynamics. Specifically, the thesis proposes a multi-party contract format and a negotiation protocol that builds such kind of contracts. Multi-party contracts are important in this context because several actors of a supply chain may build alliances comprising mutual rights and obligations. A set of bilateral contracts is not well-fitted for such a purpose. The thesis also presents an implementation of the negotiation protocol that builds on Web services and a workflow engine (YAWL). (Thesis written mostly in English).},
 author = {Evandro Baccarin},
 date = {2009-12-01},
 keyword = {PhDThesis},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/tese-eb-ic09.pdf},
 school = {Instituto de Computação - Unicamp},
 title = {Automated Negotiation of Multi-party Contracts in Agricultural Supply Chains},
 year = {2009}
}


                    	

                        	
@conference{deSousa2009,
 abstract = {Geographic information systems (GIS) are increasingly using geospatial data from the Web to produce geographic information. One big challenge is to find the relevant data, which often is based on keywords or even file names. However, these approaches lack semantics. Thus, it is necessary to provide mechanisms to prepare data to help retrieval of semantically relevant data. This paper proposes an approach to attack this problem. This approach is based on semantic annotations that use geographic metadata and ontologies to describe heterogeneous geospatial data. Semantic annotations are RDF/XML files that rely on a FGDC metadata schema, filled with appropriate ontology terms, and stored in a XML database. The proposal is illustrated by a case study of semantic annotations of agricultural resources, using domain ontologies.},
 author = {Sidney Roberto de Sousa},
 booktitle = {3rd International Workshop on Semantic and Conceptual Issues in GIS (SeCoGIS 2009)},
 date = {2009-11-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/finalVersionSeCoGISSidney2009.pdf},
 pages = {327–336},
 title = {A Semantic Approach to Describe Geospatial Resources},
 volume = {LNCS 5833},
 year = {2009}
}


                    	

                        	
@conference{Macario2009,
 author = {Carla Geovana N. Macário and Sidney Roberto de Sousa and Claudia Bauzer Medeiros},
 booktitle = {17th ACM SIGSPATIAL Conference},
 date = {2009-11-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/acm2009.pdf},
 pages = {81-90},
 publisher = {ACM},
 title = {Annotating Geospatial Data based on its Semantics},
 year = {2009}
}


                    	

                        	
@techreport{Bacarin2009b,
 abstract = {A supply chain comprises several different kind of actors that interact either in an ad hoc fashion (e.g., an eventual deal) or in a previously well planned way. In the latter case, how the interactions develop is described in contracts that are agreed on before the interactions start. This agreement may involve several partners, thus a multi-party contract is better suited than a set of bi-lateral contracts. If one is willing to negotiate automatically such kind of contracts, an appropriate negotiation protocol should be at hand. However, the ones for bi-lateral contracts are not suitable for multi-party contracts, e.g., the way of achieving consensus when only two negotiators are haggling over some issue is quite different if there are several negotiators involved. In the first case, a simple bargain would suffice, but in the latter a ballot process is needed. This paper presents a negotiation protocol for electronic multi-party contracts which seamlessly combines several negotiation styles. It also elaborates on the main negotiation patterns the protocol allows for: bargain (for peer-to-peer negotiation), auction (when there is competition among the negotiators) and ballot (when the negotiation aims at consensus). Finally, it describes an implementation of this protocol based on Web services, and built on the YAWL Workflow Management System.},
 author = {E. Bacarin E.R.M. Madeira and C.M.B. Medeiros and W.M.P. van der Aalst},
 date = {2009-11-01},
 institution = {Institute of Computing, State University of Campinas},
 keyword = {Techreport},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/tr-ic-09-44.pdf},
 number = {TR-IC-09-44},
 title = {SPICA's Multi-party Negotiation Protocol: Implementation using YAWL},
 type = {Technical Report},
 year = {2009}
}


                    	

                        	
@conference{deSousa2009b,
 abstract = {Geographic information systems (GIS) are increasingly using geospatial data from the Web to produce geographic information. One big challenge is to find the relevant data, which often is based on keywords or even file names. However, these approaches lack semantics. Thus, it is necessary to provide mechanisms to prepare data to help retrieval of semantically relevant data. This paper proposes an approach to attack this problem. This approach is based on semantic annotations that use geographic metadata and ontologies to describe heterogeneous geospatial data. Semantic annotations are RDF/XML files that rely on a FGDC metadata schema, filled with appropriate ontology terms, and stored in a XML database. The proposal is illustrated by a case study of semantic annotations of agricultural resources, using domain ontologies.},
 author = {Sidney Roberto de Sousa and Claudia Bauzer Medeiros},
 booktitle = {VIII WTDBD - Workshop de Teses e Dissertações em Bancos de Dados},
 date = {2009-10-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/57578_1.pdf},
 note = {Accepted for presentation and publication},
 title = {Management of Semantic Annotations of Data on Web for Agricultural Applications},
 year = {2009}
}


                    	

                        	
@conference{Spina2009,
 abstract = {Edition of natural images usually asks for considerable user involvement, being segmentation one of the main challenges. This paper describes a unified graph-based framework for fast, precise and accurate interactive image segmentation. The method divides segmentation into object recognition, enhancement and extraction. Recognition is done by the user when markers are selected inside and outside the object. Enhancement increases the dissimilarities between object and background and extraction separates them. Enhancement is done by a fuzzy pixel classifier and it has a great impact in the number of markers required for extraction. In view of minimizing user involvement, we focus this paper on a comparative study among popular classifiers for enhancement, conducting experiments with several natural images and seven users.},
 author = {Thiago V. Spina and Javier A. Montoya-Zegarra and Fábio Andrijauskas and Fábio A. Faria and Carlos E. A. Zampieri and Sheila M. Pinto-Cáceres and Tiago J. de Carvalho and Alexandre X. Falcão},
 booktitle = {SIBGRAPI},
 date = {2009-10-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/58129.pdf},
 title = {A comparative study among pattern classifiers in interactive image segmentation},
 year = {2009}
}


                    	

                        	
@conference{Senra2009,
 abstract = {The first SBC Challenge aims to provide solutions to the problem of managing large volumes of multimedia data. Our goal is to contribute towards research in these directions by discussing the problems involved in sharing scientific digital information. First, we propose a conceptual framework (SciFrame) that helps to understand the main issues involved and to integrate related research efforts. Second, we use a real case study to point out problems which are particular to scientific data management. Finally, we describe our case study using SciFrame.},
 author = {Rodrigo Dias Arruda Senra and Claudia Bauzer Medeiros},
 booktitle = {XXIV SBBD - III eScience workshop},
 date = {2009-10-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/sbbd2009.pdf},
 title = {SciFrame: a conceptual framework to describe data sharing in e-Science},
 year = {2009}
}


                    	

                        	
@mastersthesis{Vilar2009,
 abstract = {Sistemas de informação de biodiversidade lidam com um conjunto heterogêneo de informações providas por diferentes grupos de pesquisa. A diversificação pode ocorrer com relação às espécies estudadas, à estruturação das informações coletadas, ao local de estudo, metodologias de trabalho ou objetivos dos pesquisadores, dentre outros fatores. Esta heterogeneidade de dados, usuários e procedimentos dificulta o reuso e o compartilhamento de informações. Este trabalho contribui para diminuir tal obstáculo, melhorando o processo de consulta às informações em sistemas de biodiversidade. Para tanto, propõe um mecanismo de expansão de consultas que pré-processa uma consulta de usuário (cientista) agregando informações adicionais, provenientes de ontologias, para aproximar o resultado da intenção do usuário. Este mecanismo é baseado em serviços Web e foi implementado e testado usados dados e casos de uso reais.},
 author = {Bruno Siqueira Campos Mendonça Vilar},
 date = {2009-09-01},
 keyword = {Mastersthesis},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/DissertacaoBrunoLIS.pdf},
 school = {Instituto de Computação - Unicamp},
 title = {Processamento de Consultas Baseado em Ontologias para Sistemas de Biodiversidade},
 year = {2009}
}


                    	

                        	
@conference{Murthy2009,
 abstract = {Fish species identification is critical to the study of fish ecology and management of fisheries. Traditionally, dichotomous keys are used for fish identification. The keys consist of questions about the observed specimen. Answers to these questions lead to more questions till the reader identifies the specimen. However, such keys are incapable of adapting or changing to meet different fish identification approaches, and often do not focus upon distinguishing characteristics favored by many field ecologists and more user-friendly field guides. This makes learning to identify fish diffcult for Ichthyology students. Students usually supplement the use of the key with other methods such as making personal notes, drawings, annotated fish images, and more recently, fish information websites, such as Fishbase. Although these approaches provide useful additional content, it is dispersed across heterogeneous sources and can be tedious to access. Also, most of the existing electronic tools have limited support to manage user created content, especially that related to parts of images such as markings on drawings and images and associated notes. We present SuperIDR, a superimposed image description and retrieval tool, developed to address some of these issues. It allows users to associate parts of images with text annotations. Later, they can retrieve images, parts of images, annotations, and image descriptions through text- and content-based image retrieval. We evaluated SuperIDR in an undergraduate Ichthyology class as an aid to fish species identification and found that the use of SuperIDR yielded a higher likelihood of success in species identification than using traditional methods, including the dichotomous key,fish web sites, notes, etc.},
 author = {Uma Murthy and Edward A. Fox and Yinlin Chen and Eric Hallerman and Ricardo da Silva Torres and Evandro J. Ramos and Tiago R. C. Falcão},
 booktitle = {ECDL '09: Proc. of the 13th European conference on Research and Advanced Technology for Digital Libraries,  Corfu, Greece},
 date = {2009-09-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/umurthy2009_ecdl_superimposed_image.pdf},
 title = {Superimposed image description and retrieval for fish species identification},
 year = {2009}
}


                    	

                        	
@techreport{Kozievitch2009b,
 abstract = {The project Deployment and Assessment of an Image Annotation and Retrieval Tool has the objective of specifying and implementing an application for image support annotation and search (based on a textual and a visual description) in the biodiversity domain. This technical report presents the activities related to the use of the tablet PC tool in the parasitology domain at Unicamp. The objective of this tool is to help the comparison of morphological characteristics among different species. The report is divided into activities accomplished, application setup and specific features, followed by experimental results and conclusion. Preliminary results showed that students regarded the tool as being very useful, contributing as an alternative learning approach.},
 author = {Nádia P. Kozievitch and Ricardo da Silva Torres and Thiago Falcão and Evandro Ramos and Felipe Andrade and Silmara Marques Allegretti and Marlene Tiduko Ueta and Rubens Riscala Madi and Uma Murthy and Eduard A. Fox and Yinlin Chen and Eric Hallerman},
 date = {2009-07-01},
 institution = {Institute of Computing, State University of Campinas},
 keyword = {Techreport},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/09-23.pdf},
 number = {IC-09-23},
 title = {Evaluation of a Tablet PC image annotation and retrieval tool in the parasitology domain.},
 type = {Technical Report},
 year = {2009}
}


                    	

                        	
@mastersthesis{Filho2009,
 abstract = {The sharing of information, processes and models of experiments is increasing among scientists from many organizations and areas of knowledge, and thus there is a need for supply mechanisms of workflow discovery. Many of these models are described as scientific workflows. However, there is no default specification to describe them, which complicates the reuse of workflows and components that are available. This thesis contributes to solving this problem by presenting the following results: analysis of issues related to the sharing and cooperative design of scientific workflows on the Web; analysis of semantic aspects and metadata related to workflows, the development of a Web-based workflow editor, which incorporates our semantic annotation model for scientific workflows. Given these factors, this work creates the basis to allow the discovery, reuse and sharing of scientific workflows in the Web.},
 author = {Arnaldo Francisco Vitaliano Filho},
 date = {2009-07-01},
 keyword = {Mastersthesis},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/DissertacaoArnaldoVitaliano.pdf},
 school = {Instituto de Computação - Unicamp},
 title = {Mechanisms for Semantic Annotation of Scientific Workflows (Mecanismos de Anotação Semântica de Workflows Cientificos)},
 year = {2009}
}


                    	

                        	
@article{Macario2009b,
 abstract = {The Web is a huge repository of geospatial information. Efficient retrieval of this information is a key factor in planning and decision-making in many domains, including agriculture. However, standards for data annotation and exchange enable only syntactic interoperability, while semantic heterogeneity presents challenges. This work describes a framework that tackles interoperability problems via semantic annotations, which are based on multiple ontologies. The framework is being developed within a project to support agricultural planning in Brazil. The paper discusses design and implementation issues using a real case study, provides an overview of annotation mechanisms and identifies requirements for annotating agricultural data.},
 author = {C. G. N Macário and C. B. Medeiros},
 date = {2009-06-01},
 journal = {Int. J. Metadata, Semantics and Ontology - Special Issue on "Agricultural Metadata and Semantics"},
 keyword = {Article},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/IJMSO-41212-Macario-and-Medeiros-2.pdf},
 number = {1/2},
 pages = {118-132},
 title = {A Framework for Semantic Annotation of Geospatial Data for Agriculture},
 volume = {4},
 year = {2009}
}


                    	

                        	
@conference{Kozievitch2009,
 abstract = {There are several applications which need support for complex objects, such as new mechanisms for managing data, creating references, links and annotations; clustering or organizing complex digital objects and their components. At this work we present a research proposal to address these issues. The objective is to specify and implement a formal and unified framework to manage multimodal complex objects in digital libraries, using the 5S formalism and Digital Content Component (DCC) aggregation.},
 author = {Nádia Puchalski Kozievitch},
 booktitle = {JCDL ´09 - Proc. of Joint Conference on Digital Libraries},
 date = {2009-06-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/consortium_nadia.pdf},
 title = {Complex Objects in Digital Libraries},
 year = {2009}
}


                    	

                        	
@techreport{Li2009,
 abstract = {Há uma grande quantidade de informação na Web sobre entidades geográficas e grande interesse em localizá-la em mapas. Entretanto, os mecanismos de busca na Web ainda não suportam em uma única ferramenta buscas que envolvam relações espaciais, pois em geral a consulta é processada levando-se em conta apenas as palavras-chaves usadas na consulta. Este artigo faz uma breve revisão da área de Recuperação de Informação Geográfica (GIR) e uma releitura de desafios e oportunidades de pesquisa da área a partir da proposta de uma arquitetura para buscas Web envolvendo relacionamento espacial entre entidades geográficas e uma implementação inicial dela.

The geographic information is part of people's daily life. There is a huge amount of information on the Web about or related to geographic entities and people are interested in localizing them on maps. Nevertheless, the conventional Web search engines, which are keywords-driven mechanisms, do not support queries involving spatial relationships between geographic entities. This paper revises the Geographic Information Retrieval (GIR) area and restates its research challenges and opportunities, based on a proposed architecture for executing Web queries involving spatial relationships and an initial implementation of that.},
 author = {Lin Tzy Li and Ricardo da Silva Torres},
 date = {2009-05-01},
 institution = {Institute of Computing, State University of Campinas},
 keyword = {Techreport},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/RelTec-IC-LTL1.pdf},
 number = {IC-09-18},
 title = {Revisitando os desafios da recuperação de informação geográfica na Web},
 type = {Technical Report},
 year = {2009}
}


                    	

                        	
@mastersthesis{Figueiredo2009,
 abstract = {Cadeias produtivas têm se tornado cada vez mais dependentes de sistemas computacionais. Além dos desafios científicos, há várias conseqüências econômicas. Esta dissertação trata de mecanismos de gerenciamento de regras que especificam a qualidade de produtos em cadeias produtivas sob dois aspectos: (i) a especificação e armazenamento destas regras e (ii) a análise dos eventos ocorridos na cadeia face a tais restrições. A dissertação parte de um modelo de rastreabilidade para cadeias produtivas agrícolas desenvolvido na UNICAMP. As regras de qualidade gerenciadas definem condições atribuídas a produtos de forma que eles possam ser consumidos. A verificação de regras é baseada na análise de variáveis consideradas críticas para a garantia de qualidade, que são monitoradas por sensores. Portanto, esta pesquisa combina trabalhos em gerenciamento de dados de sensores, bancos de dados ativos e restrições de integridade. As principais contribuições são: um estudo detalhado sobre rastreabilidade associada a regras de qualidade, um modelo para gerenciar a especificação, aplicação e análise dessas regras e um protótipo para validar a arquitetura. O protótipo é baseado em serviços Web e disseminação de eventos. Os estudos de caso são baseados em problemas na área de agricultura.},
 author = {Mauricio Augusto Figueiredo},
 date = {2009-05-01},
 keyword = {Mastersthesis},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/Versao-nao-assinada.pdf},
 school = {Instituto de Computação - Unicamp},
 title = {Managing the Quality of Products in a Supply Chain (Gerenciamento de Regras de Qualidade de Produtos em Cadeias Produtivas)},
 year = {2009}
}


                    	

                        	
@conference{Bacarin2009,
 abstract = {Assembling virtual organizations is a complex process, which can be modeled and managed by means of a multi-party contract. Such a contract must encompass seeking consensus among parties in some issues, while simultaneously allowing for competition in others. Present solutions in contract negotiation are not satisfactory because they do not accommodate such a variety of needs and negotiation protocols. This paper shows our solution to this problem, discussing how our SPICA negotiation protocol can be used to build up virtual organizations. It assesses the effectiveness of our approach and discusses the protocol’s implementation.},
 author = {Evandro Bacarin and Edmundo R.M. Madeira and Claudia Bauzer Medeiros},
 booktitle = {11th International Conference on Enterprise Information Systems},
 date = {2009-05-01},
 keyword = {Conference},
 pages = {758-769},
 publisher = {Springer},
 title = {Assembling and Managing Virtual Organizations out of Multi-party Contracts},
 volume = {24},
 year = {2009}
}


                    	

                        	
@conference{dosSantos2009b,
 abstract = {This paper presents an interactive technique for remote sensing image classification. In our proposal, users are able to interact with the classification system, indicating regions which are of interest. Furthermore, a genetic programming approach is used to learn user preferences and combine image region descriptors that encode spectral and texture properties. Experiments demonstrate that the proposed method is effective and suitable for image classification tasks.},
 author = {Jefersson Alex dos Santos and Rubens Augusto Lamparelli and Ricardo da Silva Torres},
 booktitle = {Proceedings of Brazilian Remote Sensing Symposium},
 date = {2009-04-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/sbsr2009.pdf},
 title = {Using Relevance Feedback for Classifying Remote Sensing Images},
 year = {2009}
}


                    	

                        	
@mastersthesis{Malaverri2009,
 abstract = {Biodiversity research requires correlations of data on living beings and their habitats. Such correlations can be of different types, considering factors such as spatial relationships or environmental descriptions (e.g., description of habitat and ecossystems). Biodiversity information systems are complex pieces of software that allow researchers to perform these kinds of analysis. The complexity of these systems varies with the data used, the target users, and the environment where the systems are executed. One of the problems to be faced, especially on the Web, is the heterogeneity of the data aggravated by the diversity of user vocabularies. This research contributes to solve this problem by presenting a database model that organizes the biodiversity information using consensual data standards. The proposed model combines information collected in the field with that from museum data catalogues. The model was specified with the assistance of biologists and ecologists. The database was encapsulated in a Web service to ensure transparency in using, accessing and recovering the information. The service is invoked by client applications. The database and service were tested and validated using real data, provided by the BioCore project partners. BioCore is a research project that involves computer and biology researchers from UNICAMP and USP.},
 author = {Joana E. Gonzales Malaverri},
 date = {2009-04-01},
 keyword = {Mastersthesis},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/teseJoana.pdf},
 school = {Instituto de Computação - Unicamp},
 title = {Um Serviço de Gerenciamento de Coletas para Sistemas de Informação de Biodiversidade},
 year = {2009}
}


                    	

                        	
@mastersthesis{Penatti2009,
 abstract = {A crescente quantidade de imagens geradas e disponibilizadas atualmente tem feito aumentar a necessidade de criação de sistemas de busca para este tipo de informação. Um método promissor para a realização da busca de imagens é a busca por conteúdo. Este tipo de abordagem considera o conteúdo visual das imagens, como cor, textura e forma de objetos, para indexação e recuperação. A busca de imagens por conteúdo tem como componente principal o descritor de imagens. O descritor de imagens é responsável por extrair propriedades visuais das imagens e armazená-las em vetores de características. Dados dois vetores de características, o descritor compara-os e retorna um valor de distância. Este valor quantifica a diferença entre as imagens representadas pelos vetores. Em um sistema de busca de imagens por conteúdo, a distância calculada pelo descritor de imagens é usada para ordenar as imagens da base em relação a uma determinada imagem de consulta. Esta dissertação realiza um estudo comparativo de descritores de imagens considerando a Web como cenário de uso. Este cenário apresenta uma quantidade muito grande de imagens e de conteúdo bastante heterogêneo. O estudo comparativo realizado nesta dissertação é feito em duas abordagens. A primeira delas considera a complexidade assintótica dos algoritmos de extração de vetores de características e das funções de distância dos descritores, os tamanhos dos vetores de características gerados pelos descritores e o ambiente no qual cada descritor foi validado originalmente. A segunda abordagem compara os descritores em experimentos práticos em quatro bases de imagens diferentes. Os descritores são avaliados segundo tempo de extração, tempo para cálculos de distância, requisitos de armazenamento e eficácia. São comparados descritores de cor, textura e forma. Os experimentos são realizados com cada tipo de descritor independentemente e, baseado nestes resultados, um conjunto de descritores é avaliado em uma base com mais de 230 mil imagens heterogêneas, que reflete o conteúdo encontrado na Web. A avaliação de eficácia dos descritores na base de imagens heterogêneas é realizada por meio de experimentos com usuários reais. Esta dissertação também apresenta uma ferramenta para a realização automatizada de testes comparativos entre descritores de imagens.},
 author = {Otávio Augusto Bizetto Penatti},
 date = {2009-03-01},
 keyword = {Mastersthesis},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/dissertacaoFinal.pdf},
 school = {Instituto de Computação - Unicamp},
 title = {Estudo comparativo de descritores para recuperação de imagens por conteúdo na Web},
 year = {2009}
}


                    	

                        	
@conference{Malaverri2009b,
 abstract = {Biodiversity Information Systems are complex software systems that present data management solutions to allow researchers to analyze species and their interactions. The complexity of these systems varies with the data handled, users targeted and environment in which they are executed. An open problem to be faced especially in a Web environment is data heterogeneity, and the diversity of user vocabularies and needs. This hampers query processing. This paper presents a tool based onWeb services to expand and process biodiversity queries using ontology information. This solution relies on a new database organization, also described here, which combines in a single model data collected in the field with data found in archival sources. This tool is being tested using real case studies, within a large Web-based biodiversity system.},
 author = {Joana G. Malaverri and Bruno Vilar and Claudia Bauzer Medeiros},
 booktitle = {5th International Conference on Web Information Systems and Technologies (Webist 2009)},
 date = {2009-03-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/webist2009.pdf},
 title = {A Tool Based on Web Services to Query Biodiversity Information},
 year = {2009}
}


                    	

                        	
@conference{Macario2009b,
 abstract = {Geospatial information catalogs are complex infrastructures that store and publish geographic information. They are an important part of Geographic Information Systems (GIS), systems that manage geospatial data for a wide variety of application domains. To be useful, a catalog must efficiently support discovery and retrieval of geospatial information, working as a key component for planning and decision-making in a variety of domains. Catalogs use standards to support data interoperability. However, the simple adoption of standards and specifications for geospatial data description enables only syntactic interoperability. Semantic heterogeneity still presents challenges for the so-called Geospatial Semantic Web. This work discusses some features that GIS catalogs should have, focusing in semantic issues. We tested some existing and well known catalogs, comparing them by means of these features. Based on this comparison, we identified some open issues that should be addressed considering advanced Geospatial applications on the Web.},
 author = {Carla Geovana N. Macário and Claudia Bauzer Medeiros},
 booktitle = {5th International Conference on Web Information Systems and Technologies (Webist 2009)},
 date = {2009-03-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/webist09.pdf},
 pages = {335-340},
 title = {The Geospatial Semantic Web: are GIS Catalogs prepared for this?},
 year = {2009}
}


                    	

                        	
@mastersthesis{dosSantos2009,
 abstract = {O uso de imagens de sensoriamento remoto (ISRs) como fonte de informação em aplicações voltadas para o agronegócio é bastante comum. Nessas aplicações, saber como é a ocupação espacial é fundamental. Entretanto, reconhecer e diferenciar regiões de culturas agrícolas em ISRs ainda não é uma tarefa trivial. Embora existam métodos automáticos propostos para isso, os usuários preferem muitas vezes fazer o reconhecimento manualmente. Isso acontece porque tais métodos normalmente são feitos para resolver problemas específicos, ou quando são de propósito geral, não produzem resultados satisfatórios fazendo com que, invariavelmente, o usuário tenha que revisar os resultados manualmente. A pesquisa realizada objetivou a especificação e implementação parcial de um sistema para o reconhecimento semi-automático e vetorização de regiões em imagens de sensoriamento remoto. Para isso, foi usada uma estratégia interativa, chamada realimentação de relevância, que se baseia no fato de o sistema de classificação poder aprender quais são as regiões de interesse utilizando indicações de relevância feitas pelo usuário do sistema ao longo de iterações. A idéia é utilizar descritores de imagens para codificarinformações espectrais e de textura de partições da imagens, utilizar realimentação de relevância com Programação genética (PG) para combinar as características dos descritores. PG é uma técnica de aprendizado de máquina baseada na teoria da evolução. As principais contribuições desse trabalho são: estudo comparativo de técnicas de vetorização de imagens; adaptação do modelo de recuperação de imagens por conteúdo proposto recentemente para realização de realimentação de relevância usando regiões de imagem; adaptação do modelo de realimentação de relevância para o reconhecimento de regiões em ISRs; implementação parcial de um sistema de reconhecimento semi-automático e vetorização de regiões em ISRs; proposta de metodologia de validação do sistema desenvolvido.},
 author = {Jefersson Alex dos Santos},
 date = {2009-02-01},
 keyword = {Mastersthesis},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2015/09/SantosJeferssonAlexdos.pdf},
 school = {Instituto de Computação - Unicamp},
 title = {Reconhecimento Semi-automático e Vetorização de Regiões em Imagens de Sensoriamento Remoto},
 year = {2009}
}


                    	

                        	
@article{Macario2009b,
 abstract = {The Web is a huge repository of geospatial information (GI), distributed all over the world. Efficient retrieval of this information is a key factor in planning and decision-making in a variety of domains. However, the proposed standards and specifications for data annotation and exchanging enable only syntactic interoperability. Semantic heterogeneity still presents challenges for GI retrieval. One possible approach to tackle these problems is to elicit knowledge by means of semantic annotations, based on multiple ontologies. This work describes a framework to support management of semantic annotations for digital content on the Web, for agricultural planning and monitoring. This will help end-users (agronomers, farmers, Earth scientists) to work cooperatively in developing integrated practices for land management. Content to be annotated in this context includes, for instance, satellite images, sensor data temporal series (e.g., from ground sensors or weather stations), and all kinds of textual data files.},
 address = {New York, NY, USA},
 author = {Carla Geovana N. Macário and Claudia Bauzer Medeiros},
 date = {2009-01-01},
 doi = {http://doi.acm.org/10.1145/1517463.1517466},
 issn = {1946-7729},
 journal = {SIGSPATIAL Special},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/p27-macario.pdf},
 number = {1},
 pages = {27-32},
 title = {Specification of a framework for semantic annotation of geospatial data on the web},
 volume = {1},
 year = {2009}
}


                    	

                        	
@article{Jr2009,
 abstract = {The quest for interoperability is one of the main driving forces behind international organizations such as OGC and W3C. In parallel, a trend in systems design and development is to break down GIS functionalities into modules that can be composed in an ad hoc manner. This component-driven approach increases flexibility and extensibility. For scientists whose research involves geospatial analysis, however, such initiatives mean more than interoperability and flexibility. These efforts are progressively shielding these users from having to deal with problems such as data representation formats, communication protocols or pre-processing algorithms. Once scientists are allowed to abstract from lower level concerns, they can shift their focus to the design and implementation of the computational models they are interested in. This paper analyzes how interoperability and componentization efforts have this underestimated impact on the design and development perspective. This discussion is illustrated by the description of the design and implementation of WebMAPS, a geospatial information system to support agricultural planning and monitoring. By taking advantage of new results in the above areas, the experience with WebMAPS presents a road map to leverage system design and development by the seamless composition of distributed data sources and processing solutions.},
 author = {Gilberto Zonta Pastorello Jr and Rodrigo Dias Arruda Senra and Claudia Bauzer Medeiros},
 date = {2009-01-01},
 journal = {Journal of the Brazilian Computer Society},
 keyword = {Article},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/pastorellojr-senra-medeiros_JBCS.pdf},
 number = {1},
 pages = {13-26},
 title = {A standards-based framework to foster geospatial data and process interoperability},
 volume = {15},
 year = {2009}
}


                    	

                        	
@conference{Jr2008b,
 abstract = {Scientific research is producing and consuming large volumes of multimedia data at an ever growing rate. Annotations to the data helps associating context and enhances content management, making it easier to interpret and share data. However, raw data often needs to go through complex processing steps before it can be consumed. During these transformation processes, original annotations from the production phase are often discarded or ignored, since their usefulness is usually limited to the first transformation step. New annotations must be associated with the final product, a time consuming task often carried out manually. Systematically associating new annotations to the result of each data transformation step is known as {\em annotation propagation}. This paper introduces techniques for structuring annotations by applying references to ontologies and automatically transforming these annotations along with data transformation processes. This helps the construction of new annotated multimedia data sets, preserving contextual information. The solution is based on: (i) the notion of semantic annotations; and (ii) a set of transformations rules, based on ontological relations.},
 author = {Gilberto Zonta Pastorello Jr and Jaudete Daltio and Claudia Bauzer Medeiros},
 booktitle = {Proceedings of the 1st IEEE International Workshop on Data Semantics for Multimedia Systems and Applications (DSMSA) -- 10th IEEE International Symposium on Multimedia (ISM)},
 date = {2008-12-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/PastorelloJretal-AnnotationPropagation.pdf},
 title = {Multimedia Semantic Annotation Propagation},
 year = {2008}
}


                    	

                        	
@phdthesis{Jr2008,
 abstract = {Sensing devices are becoming widely disseminated, being applied in several domains, noticeably in scientific research. However, the increase in their number and variety introduces problems on managing the produced data, such as how to provide sensor data at distinct rates or temporal resolutions for different applications, or how to pre-process or format the data differently for each request. This work is concerned with tackling four issues that arise in the management of sensor data for scientific applications: (i) providing homogeneous access to heterogeneous sensing devices and their data; (ii) managing the composition of operations applied to sensor data; (iii) offering flexible data pre-processing facilities prior to sensor data publication; and, (iv) propagating and creating valid data annotations (metadata) throughout the data life cycle. The proposed solution to issue (i) is to uniformly encapsulate both software and data by extending a component technology called Digital Content Components (DCCs), also allowing associated annotations. Using these components as a basis, the proposed solution to (ii) is to apply scientific workflows to coordinate the combination of data and software DCCs. The solution proposed to (iii) involves invoking and posting workflow specifications from the data provider as well as using the annotations on DCCs to enrich the queries and answers. Finally, an annotation propagation mechanism is proposed as a solution to (iv). Our contributions arepresented within a framework for sensor data management, which unifies aspects of data access, pre-processing, publication and annotation.},
 author = {Gilberto Zonta Pastorello Jr},
 date = {2008-12-01},
 keyword = {PhDThesis},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/tese_GZPastorelloJr.pdf},
 school = {Instituto de Computação - Unicamp},
 title = {Managing the lifecycle of sensor data: from production to consumption},
 year = {2008}
}


                    	

                        	
@conference{Macario2008b,
 address = {New York},
 author = {C. G. N Macario and C. B. Medeiros},
 booktitle = {Digital Proceedings of 16th ACM SIGSPATIAL International Conference on Advances in Geographic Information Systems - Ph.D. Dissertation Showcase},
 date = {2008-11-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/acmgis.pdf},
 publisher = {ACM Press},
 title = {Specification of a Framework for Semantic Annotation of Geospatial Data on the Web},
 year = {2008}
}


                    	

                        	
@conference{Jr2008b,
 abstract = {This paper analyzes how interoperability and componentization efforts in the geospatial domain have an underestimated impact on the user perspective, directly affecting model development. This discussion is illustrated by the description of the design and implementation of WebMAPS, a geospatial information system to support agricultural planning and monitoring.},
 author = {Gilberto Zonta Pastorello Jr and Rodrigo Dias Arruda Senra and Claudia Bauzer Medeiros},
 booktitle = {Proceedings of the 16th ACM SIGSPATIAL International Conference on Advances in Geographic Information Systems (ACM-GIS)},
 date = {2008-11-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/pastorellojr-senra-medeiros_acmgis2008.pdf},
 title = {Bridging the gap between geospatial resource providers and model developers},
 year = {2008}
}


                    	

                        	
@conference{eMedeiros2008b,
 abstract = {O uso de sistemas computacionais para a obtenção, armazenamento, processamento e análise de informações provenientes de fluxos de cadeias produtivas tornou-se um importante tema de pesquisa. Além dos desafios científicos de natureza multidisciplinar, tem várias conseqüências econômicas. O objetivo desta dissertação é tratar de mecanismos de gerenciamento de regras de qualidade aplicadas a uma cadeia produtiva agrícola, sob dois aspectos: (i) a especificação e armazenamento dessas regras e (ii) a análise dos eventos ocorridos na cadeia face a tais restrições. Esta dissertação tem como ponto de partida um modelo de rastreabilidade para cadeias produtivas em agropecuária desenvolvido na UNICAMP. A pesquisa combina trabalhos em bancos de dados ativos, serviços Web, disseminação de eventos, e usa dados de redes de sensores. Dentre as contribuições esperadas estão: um estudo detalhado referente à rastreabilidade associada a regras de qualidade, um modelo capaz de gerenciar a especificação, aplicação e análise dessas regras e um protótipo para validação do trabalho. Os estudos de caso são baseados em problemas na área de agricultura, tendo em vista os atuais projetos em andamento no IC - UNICAMP.},
 address = {Campinas, SP - Brasil},
 author = {Maurício Augusto Figueiredo and Claudia Bauzer Medeiros},
 booktitle = {VII WTDBD - Workshop de Teses e Dissertações em Bancos de Dados},
 date = {2008-10-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/wtdbd-Mauricio.pdf},
 pages = {1-6},
 publisher = {SBBD 2008 – XXIII Simpósio Brasileiro de Bancos de Dados},
 title = {Gerenciamento de Regras de Qualidade em Cadeias Produtivas Agrícolas},
 year = {2008}
}


                    	

                        	
@conference{eMedeiros2008,
 abstract = {Sistemas de informação de biodiversidade lidam com um conjunto heterogêneo de informações providas por grupos de pesquisa, como espécies estudadas, estruturação das informações e locais de estudo. Esta heterogeneidade de dados, usuários e procedimentos dificulta o reuso e o compartilhamento de informações. O objetivo deste trabalho é melhorar o processo de consulta às informações em sistemas de biodiversidade. Para tanto, e proposto um módulo que pré-processa uma consulta de usuário (cientista) agregando informações, provenientes de ontologias, para desambigüizar a consulta. O trabalho pressupõe que os dados a serem consultados estão distribuídos em repositórios na Web, os quais são mantidos por grupos de cientistas e têm seus conteúdos acessíveis por servicos Web.},
 address = {Campinas, SP},
 author = {Bruno S. C. M. Vilar and Claudia M. Bauzer Medeiros},
 booktitle = {VII WTDBD - Workshop de Teses e Dissertações em Bancos de Dados},
 date = {2008-10-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/WTDBD-Bruno-2008.pdf},
 pages = {37-42},
 title = {Processamento Semântico de Consultas para Sistemas de Biodiversidade},
 year = {2008}
}


                    	

                        	
@conference{dosSantos2008,
 abstract = {This paper presents a new relevance feedback method for content-based image retrieval using local image features. This method adopts a genetic programming approach to learn user preferences and combine the region similarity values in a query session. Experiments demonstrate that the proposed method yields more effective results than the Local Aggregation Pattern (LAP)-based relevance feedback technique.},
 address = {Los Alamitos},
 author = {Jefersson Alex dos Santos and Cristiano Dalmaschio Ferreira and Ricardo da Silva Torres},
 booktitle = {Brazilian Symposium on Computer Graphics and Image Processing (SIBGRAPI)},
 date = {2008-10-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/santos-GPImageRetrieval.pdf},
 publisher = {IEEE Computer Society},
 title = {A genetic programming approach for relevance feedback in region-based image retrieval systems.},
 year = {2008}
}


                    	

                        	
@conference{Penatti2008,
 abstract = {This paper presents a comparative study of color descriptors for content-based image retrieval on the Web. Several image descriptors were compared theoretically and the most relevant ones were implemented and tested in two different databases. The main goal was to find out the best descriptors for Web image retrieval. Descriptors are compared according to the extraction and distance functions complexities, the compactness of feature vectors, and the ability to retrieve relevant images.},
 address = {Los Alamitos},
 author = {Otávio Augusto Bizetto Penatti and Ricardo da Silva Torres},
 booktitle = {Brazilian Symposium on Computer Graphics and Image Processing (SIBGRAPI)},
 date = {2008-10-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/penatti-ColorDescriptorsWeb.pdf},
 publisher = {IEEE Computer Society},
 title = {Color descriptors for Web image retrieval: a comparative study},
 year = {2008}
}


                    	

                        	
@conference{Macario2008,
 address = {Campinas, SP},
 author = {Carla G. N. Macário and Claudia B. Medeiros},
 booktitle = {VII Workshop de Teses e Dissertações em Bancos de Dados (SBBD 2008)},
 date = {2008-10-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/A01-45190.pdf},
 pages = {1-8},
 title = {Specification of a Framework for Semantic Annotation of Geospatial Data on the Web},
 year = {2008}
}


                    	

                        	
@conference{Ferreira2008,
 author = {Cristiano D. Ferreira and Ricardo da S. Torres and Marcos A. Gonçalves and Weiguo Fan},
 booktitle = {XXIII Simpósio Brasileiro de Banco de Dados},
 date = {2008-10-01},
 keyword = {Conference},
 title = {Image Retrieval with Relevance Feedback based on Genetic Programming},
 year = {2008}
}


                    	

                        	
@techreport{dosSantos2008b,
 abstract = {This paper presents a new relevance feedback method for content-based image retrieval using local image features. This method adopts a genetic programming approach to learn user preferences and combine the region similarity values in a query session. Experiments demonstrate that the proposed method yields more effective results than the Local Aggregation Pattern (LAP)-based relevance feedback technique.},
 author = {Jefersson Alex dos Santos and Cristiano Dalmaschio Ferreira and Ricardo da Silva Torres},
 date = {2008-08-01},
 institution = {Institute of Computing, State University of Campinas},
 keyword = {Techreport},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/08-19.ps.gz},
 number = {08-19},
 title = {A genetic programming approach for relevance feedback in region-based image retrieval systems.},
 type = {Technical Report},
 year = {2008}
}


                    	

                        	
@techreport{Jr2008b,
 abstract = {Scientific research is producing and consuming large volumes of multimedia data at an ever growing rate. Metadata -- data about data -- is the primary mechanism through which context is associated to content to enhance content management. It also makes it easier to interpret and share data and helps digital curation. However, raw data often needs to go through complex processing steps before it can be consumed. During these transformation processes, original metadata from the production phase is often discarded or ignored, since its usefulness is usually limited to the first transformation step. New metadata must be associated with the final product, a time consuming task often carried out manually. Systematically associating new metadata to the result of each data transformation step is know as metadata evolution or annotation propagation. This paper introduces techniques for semantically enhancing metadata and automatically transforming them along with the data transformation processes. This helps the construction of new annotated multimedia data sets, preserving contextual information. The solution is based on: (i) the notion of semantic annotations, which are metadata structures enriched with domain ontologies; (ii) a set of transformations rules, based on ontological relations; and, (iii) workflows, which steer the sequence of transformations.},
 author = {Gilberto Zonta Pastorello Jr and Jaudete Daltio and Claudia Bauzer Medeiros},
 date = {2008-08-01},
 institution = {Institute of Computing, State University of Campinas},
 keyword = {Techreport},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/08-17.ps.gz},
 number = {IC-08-17},
 title = {An Annotation Propagation Mechanism for Multimedia Content},
 type = {Technical Report},
 year = {2008}
}


                    	

                        	
@conference{daTorres2008,
 abstract = {Huge image collections have been created, managed and stored into image databases. Given the large size of these collections it is essential to provide efficient and effective mechanisms to retrieve images. This is the objective of the so-called content-based image retrieval – CBIR – systems. Traditionally, these systems are based on objective criteria to represent and compare images. However, users of CBIR systems tend to use subjective elements to compare images. The use of these elements have improved the effectiveness of contentbased image retrieval systems. This paper discusses approaches that incorporate semantic information into content-based image retrieval process, highlighting some new challenges on this area.},
 author = {Ricardo da S. Torres and Javier A. M. Zegarra and Jefersson A. dos Santos and Cristiano D. Ferreira and Otávio A. B. Penatti and Fernanda Andaló and Jurandy Almeida},
 booktitle = {Seminário Integrado de Software e Hardware (SEMISH)},
 date = {2008-07-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/artigo_semish.pdf},
 title = {Recuperação de Imagens: Desafios e Novos Rumos},
 year = {2008}
}


                    	

                        	
@conference{Jr2008b,
 abstract = {Scientific models are increasingly dependent on processing large volumes of streamed sensing data from a wide range of sensors, from ground based to satellite embarked infrareds. The proliferation, variety and ubiquity of those devices have added new dimensions to the problem of data handling in computational models. This raises several issues, one of which -- providing means to access and process these data -- is tackled by this paper. Our solution involves the design and implementation of a framework for sensor data management, which relies on a specific component technology -- DCC. DCCs homogeneously encapsulate individual sensors, sensor networks and sensor data archival files. They also implement facilities for controlling data production, integration and publication. As a result, developers need not concern themselves with sensor particularities, dealing instead with uniform interfaces to access data, regardless of the nature of the data providers.},
 author = {Gilberto Zonta Pastorello Jr and Claudia Bauzer Medeiros and André Santanchè},
 booktitle = {Proceedings of the IEEE 11th International Conference on Computational Science and Engineering (CSE)},
 date = {2008-07-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/pastorellojr_medeiros_santanche_cse2008.pdf},
 publisher = {IEEE Computer Society},
 title = {Accessing and Processing Sensing Data},
 year = {2008}
}


                    	

                        	
@conference{Daltio2008b,
 abstract = {Research in biodiversity associates data on living beings and their habitats, constructing sophisticated models and correlating several kinds of heterogeneous data. Such data are provided by research groups with different vocabularies, methodologies and goals, which hampers their cooperation. Ontologies are being proposed as one of the means to solve heterogeneity problems. However, this gives birth to new challenges to manage and share ontologies. This dissertation specified and developed a new kind of Web Service, whose goal is to contribute to solve such problems. The service supports a wide range of operations on ontologies, and was implemented and validated with real case studies in biodiversity, for large ontologies. The dissertation is available on UNICAMP digital library.},
 address = {Belém, Brazil},
 author = {Jaudete Daltio and Claudia Bauzer Medeiros},
 booktitle = {First place - Dissertation Competition - XXVIII Conference of the Brazilian Computer Society},
 date = {2008-07-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/CTD-publicado.pdf},
 pages = {49-56},
 title = {Aondê: Um Serviço Web de Ontologias para Interoperabilidade em Sistemas de Biodiversidade (Aondê: An Ontology Web Service for Interoperability across Biodiversity Information Systems)},
 year = {2008}
}


                    	

                        	
@article{Medeiros2008,
 abstract = {In May 2006, the Brazilian Computer Society proposed five Grand Research Challenges in Computer Science in Brazil. The societyś goal was to foster long-term planning and research in computer science, enhance cooperation with other scientific domains, and provide input to public R&D policymakers in Brazil. This paper presents the five challenges under a global perspective, showing how they can benefit from cooperation with other research fields, and discussing CS research trends in Brazil. The paper also discusses how the challenges were elicited, and future directions.},
 author = {Claudia Bauzer Medeiros},
 date = {2008-06-01},
 journal = {IEEE Computer},
 keyword = {Article},
 note = {http://doi.ieeecomputersociety.org/10.1109/MC.2008.188},
 number = {6},
 pages = {59-66},
 title = {Grand Research Challenges in Computer Science in Brazil},
 volume = {14},
 year = {2008}
}


                    	

                        	
@conference{eFigueiredo2008,
 abstract = {Com a evolução das redes para o modelo de nova geração (NGN - Next Generation Network), onde ha a separação das camadas de transporte, controle e aplicação, torna-se chave um subsistema que habilite e arbitre as requisições dos aplicativos e controladores de sessão em função dos recursos de Qualidade de Serviço (largura de banda, prioridade, etc.) disponíveis nos diferentes segmentos da rede de transporte. Este trabalho introduz as funcionalidades definidas pelos padrões internacionais das NGNs, propondo uma arquitetura de implementação que e objeto de pesquisa aplicada para explorar tecnologias e conceber estudos para o desenvolvimento de soluções que propiciem um gerenciamento integrado dos recursos de redes heterogêneas e atendam as necessidades particulares do mercado brasileiro de telecomunicações.},
 address = {Fortaleza, CE - Brasil},
 author = {Christian Esteve Rothenberg and Maurício Augusto Figueiredo},
 booktitle = {I Congresso Tecnológico InfoBrasil},
 date = {2008-05-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/artigo-ngnrc.pdf},
 pages = {1-6},
 title = {Um controlador de recursos para redes de próxima geração},
 year = {2008}
}


                    	

                        	
@conference{Nakai2008,
 abstract = {The main attractiveness of Web services is their capacity to provide interoperability among heterogeneous distributed systems. Increasingly, companies and organizations have adopted Web services as a way to interoperate with their business partners. In such a scenario, Web services choreography can be applied in the specification of interorganizational business processes. However, the dynamic nature of business partnerships requires mechanisms for agile designing and deploying choreographies. In this paper, we present an infrastructure that aims to address the above concern. Our approach aims to reach flexibility by providing mechanisms for sharing, finding and executing choreographies in a friendly manner for the user. We also present a prototype implementation.},
 author = {Alan Massaru Nakai and Carla Geovana Macário and Edmundo Madeira and Claudia Bauzer Medeiros},
 booktitle = {Proceedings of the 4th International Conference of Web Informations Systems and Technologies (WEBIST)},
 date = {2008-05-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/nakai-webist2008-cr.pdf},
 pages = {455-460},
 publisher = {INSTICC},
 title = {An Infrastructure for Sharing and Executing Choreographies},
 year = {2008}
}


                    	

                        	
@conference{Jr2008b,
 abstract = {This paper considers the problems of sensor data publication, taking advantage of research on components and Web service standards. Sensor data is widely used in scientific experiments -- e.g., for model validation, environment monitoring, and calibrating running applications. Heterogeneity in sensing devices hamper effective use of their data, requiring new solutions for publication mechanisms. Our solution is based on applying a specific component technology, Digital Content Component (DCC), which is capable of uniformly encapsulating data and software. Sensor data publication is tackled by extending CPTs to comply with geospatial standards for Web services from OGC (Open Geospatial Consortium). Using this approach, Web services can be implemented by CPTs, with publication of sensor data following standards. Furthermore, this solution allows client applications to request the execution of pre-processing functions before data is published. The approach enables scientists to share, find, process and access geospatial sensor data in a flexible and homogeneous manner.},
 author = {Gilberto Zonta Pastorello Jr and Luiz Celso Gomes Jr and Claudia Bauzer Medeiros and André Santanchè},
 booktitle = {Proceedings of the 4th International Conference on Web Information Systems and Technologies (WEBIST)},
 date = {2008-05-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/pastorellojr_gomesjr_medeiros_santanche_webist2008.pdf},
 publisher = {INSTICC},
 title = {Sensor Data Publication on the Web for Scientific Applications},
 year = {2008}
}


                    	

                        	
@conference{Joliveau2008,
 abstract = {Traffic data coming from sensor networks have prompted a wide range of research issues related with Transportation Information Systems. These data are usually represented by large and complex spatio-temporal series. This paper presents a new approach to manage rough data coming from static georeferenced sensors. Our work is based on combining analytic methods to process sensor data and proposing an architecture for an information system dedicated to road traffic. It is being conducted within a project which uses real data, generated by 1000 sensors, during 3 years, in a french big city.},
 author = {Marc Joliveau and Florian De Vuyst and Genevieve Jomier and Claudia Bauzer Medeiros},
 booktitle = {Proc. Atelier Systemes d Information en Transport},
 date = {2008-05-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/JoliveauEtAl-CADDY.pdf},
 title = {Exploitation de données brutes de trafic routier urbain issues d’un réseau de capteurs géoréférencés},
 year = {2008}
}


                    	

                        	
@mastersthesis{Mariote2008,
 abstract = {Sensor networks have increased the amount and variety of temporal data available. This motivated new techniques in data mining, which describe different aspects of time series. Related work addresses several issues, such as indexing and clustering time series, and the definition of more efficient feature vectores and distance functions. However, most results focus on describing the values in a series, and not their evolution. Furthermore, the majority of papers only characterizes a single series, which is not enough in cases where multiple kinds of data must be considered simultaneously. This dissertation presents a new technique, which describes time series using a distinct approach, characterizing oscillation patterns, rather than the values themselves. The new descriptor -- TIDES (Time Series Oscillation Descriptor) -- is based on approximating the series by segments, and then extracting the angular coefficients of the segments. TIDES supports multi-scale analysis, thereby allowing to compare two series according to distinct granularities, which enables a more thorough analysis. The dissertation also presents several extensions to TIDES, which enable describing multiple series at a time. This joint description is needed to correctly characterize phenomena which evolve jointly -- the so-called co-evolution. Experiments conducted with real data on temperature, for different Brazilian cities, show that TIDES successfully characterizes time series oscillation.},
 author = {Leonardo Elias Mariote},
 date = {2008-04-01},
 keyword = {Mastersthesis},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/dissertacao1.pdf},
 school = {Instituto de Computação - Unicamp},
 title = {Mining sensor data time series (Mineracão de séries temporais de dados de sensores)},
 year = {2008}
}


                    	

                        	
@conference{Daltio2008b,
 abstract = {Tackling biodiversity information is essentially a distributed effort. Data handled are inherently heterogeneous, being provided by distinct research groups and using different vocabularies. Queries in biodiversity systems require to correlate these data, using many kinds of knowledge on geographic, biologic and ecological issues. Available biodiversity systems can only cope with part of these queries, and end users must perform several manual tasks to derive the desired correlations, because of semantic mismatches among data sources and lack of appropriate operators. This paper presents a solution based on Web services to meet these challenges. It relies on ontologies to retrieve the query contexts and uses the terms of this context to discover suitable sources in data repositories. This approach is being tested using real data, with new services.},
 author = {J. Daltio and C. B. Medeiros and L. C. Gomes Jr and T. Lewinsohn},
 booktitle = {Proc. ACM Symposium on Applied Computing (ACM SAC)},
 date = {2008-03-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/SWA.pdf},
 title = {A Framework to Process Complex Biodiversity Queries},
 year = {2008}
}


                    	

                        	
@conference{Zenteno2008,
 abstract = {This paper introduces a process for developing Web GIS (Geographic Information Systems) applications. This process integrates the NDT (Navigational Development Techniques) approach with some of the Organizational Semiotic models. The use of the proposed development process is illustrated for a real application: the construction of the WebMaps system. WebMaps is a Web GIS system whose main goal is to support harvest planning in Brazil.},
 author = {A. T. Zenteno and J. M. Cuaresma and J. Gutierrez and E. Martins and R. da S. Torres and M. C. Baranauskas},
 booktitle = {Proceedings of the 10th International Conference on Enterprise Information Systems, Barcelona},
 date = {2008-01-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/zenteno08iceis.pdf},
 title = {A Development Process for Web Geographic Information System.},
 year = {2008}
}


                    	

                        	
@conference{Zegarra2008,
 abstract = {This paper proposes a new texture descriptor to guide the search and retrieval in image databases. It extracts rich information from global and local primitives of textured images. At a higher level, the global macro-features in textured images are characterized by exploiting the multiresolution properties of the Steerable Pyramid Decomposition. By doing this, the global texture configurations are highlighted. At a finer level, the local arrangements of texture micro-patterns are encoded by the Local Binary Pattern operator. Experiments were carried out on the standard Vistex dataset aiming to compare our descriptors against popular texture extraction methods with regard to their retrieval accuracies. The comparative evaluations allowed us to show the superior descriptive properties of our feature representation methods.},
 author = {J. A. M. Zegarra and J. C. Beek-Pepper and N. J. Leite and R. da S. Torres and A. X. Falcão},
 booktitle = {IEEE International Symposium on Multimedia, 2008, Berkeley, California, USA},
 date = {2008-01-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/zegarra08ism.pdf},
 title = {Combining Global with Local Texture Information for Image Retrieval Applications.},
 year = {2008}
}


                    	

                        	
@conference{Rocha2008,
 abstract = {CBIR is a challenging problem both in terms of effectiveness and efficiency. In this paper, we present a flexible cluster-and-search approach that is able to reuse any previously proposed image descriptor as long as a suitable similarity function is provided. In the clustering step, the image data set is clustered using a hybrid divisive-agglomerative hierarchical clustering technique. The obtained clusters are organized in a tree that can be traversed efficiently using the similarity function associated with the chosen image descriptors. Our experiments have shown that we can improve search-time performance by a factor of 10 or more, at the cost of small loss, typically less than 15%, in effectiveness whencompared to the state-of-the-art solutions.},
 author = {A. Rocha and J. G. Almeira Jr and M. Nascimento and R. da S. Torres and S. K. Goldenstein},
 date = {2008-01-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/rocha08acvis.pdf},
 title = {Efficient and Flexible Cluster-and-Search for CBIR},
 year = {2008}
}


                    	

                        	
@techreport{Medeiros2008b,
 abstract = {WIT is an initiative of the Brazilian Computer Society (SBC) to discuss gender issues in Information Technology (IT) in Brazil – success stories, policies to foster participation, and ways and means to attract and involve the young, especially women, in IT-related careers. Organized around guest speakers and panels, the workshop concentrated on debating problems related with women´s access to IT – the job market, digital inclusion and literacy. WIT was organized by Claudia Bauzer Medeiros and Karin Breitman, both CS faculty and part of the board of SBC. This report was submitted to the ACM-W CIS newsletter of August 2008},
 author = {Claudia Bauzer Medeiros and Karin Breitman},
 date = {2008-01-01},
 institution = {2008},
 keyword = {Techreport},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/WIT08Report.pdf},
 number = {WIT08 Report},
 title = {Report on WIT08 - II Workshop on Women in Information Technology},
 type = {Technical Report},
 year = {2008}
}


                    	

                        	
@conference{Jr2008,
 abstract = {Content-based image retrieval (CBIR) is a challenging task. Common techniques use only low-level features. However, these solutions can lead to the so-called ‘semantic gap’ problem: images with high feature similarities may be different in terms of user perception. In this paper, our objective is to retrieve images based on color cues which may present some affine transformations. For that, we present CSIR: a new method for comparing images based on discrete distributions of distinctive color and scale image regions. We validate the technique using images with a large range of viewpoints, partial occlusion, changes in illumination, and various domains.},
 author = {J. G. Almeida Jr and A. Rocha and R. da S. Torres and S. K. Goldenstein},
 booktitle = {23rd Annual ACM Symposium on Applied Computing, Fortaleza, Brazil},
 date = {2008-01-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/almeida08acmsac.pdf},
 title = {Making Colors Worth More than a Thousand Words.},
 year = {2008}
}


                    	

                        	
@article{Daltio2008,
 abstract = {Biodiversity research requires associating data about living beings and their habitats, constructing sophisticated models and correlating all kinds of information. Data handled are inherently heterogeneous, being provided by distinct (and distributed) research groups, which collect these data using different vocabularies, assumptions, methodologies and goals, and under varying spatio-temporal frames. Ontologies are being adopted as one of the means to alleviate these heterogeneity problems, thus helping cooperation among researchers. While ontology toolkits offer a wide range of operations on ontologies, they are self-contained and cannot be accessed by external applications. Thus, the many proposals for adopting ontologies to enhance interoperability in application development are either based on the use of ontology servers or of ontology frameworks. The latter support many functions, but impose application recoding whenever ontologies change, whereas the first supports ontology evolution, for a limited set of functions. This paper presents Aondê -- a Web service geared towards the biodiversity domain that combines the advantages of both frameworks and servers, supporting flexible ontology sharing and management on the Web. By clearly separating storage concerns from semantic issues, the service provides independence between ontology evolution and the applications that need them. The service provides a wide range of basic operations for creation, storage, management, analysis and integration of multiple ontologies. These operations can be repeatedly invoked by client applications to construct more complex manipulations. Aondê has been validated for real biodiversity case studies.},
 author = {Jaudete Daltio and Claudia Bauzer Medeiros},
 date = {2008-01-01},
 journal = {Information Systems},
 keyword = {Article},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/InformationSystems.pdf},
 number = {7-8},
 pages = {724-753},
 title = {Aondê: An Ontology Web Service for Interoperability across Biodiversity Applications},
 volume = {33},
 year = {2008}
}


                    	

                        	
@article{Barga2008,
 abstract = {For the first provenance challenge, we introduce a layered model to represent workflow provenance that allows navigation from an abstract model of the experiment to instance data collected during a specificexperiment run. We outline modest extensions to a commercial workflow engine so it will automatically capture provenance at workflow runtime. We also present an approach to store this provenance data in a relational database. Finally, we demonstrate how core provenance queries in the challenge can be expressed in SQL and discuss the merits of our layered representation. Copyright © 2007 John Wiley & Sons, Ltd.},
 author = {Roger S. Barga and Luciano Antonio Digiampietri},
 date = {2008-01-01},
 journal = {Concurrency and Computation: Practice and Experience},
 keyword = {Article},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/VERSAO_FINAL_CCPE1235.pdf},
 number = {5},
 pages = {419-429},
 title = {Automatic capture and efficient storage of escience experiment provenance},
 volume = {20},
 year = {2008}
}


                    	

                        	
@article{Bacarin2008,
 abstract = {Supply chains are composed of distributed, heterogeneous and autonomous elements, whose relationships are dynamic. Agricultural supply chains, in particular, have a number of distinguishing features - e.g., they are characterized by strict regulations to ensure safety of food products, and by the need for multi-level traceability. Contracts in such chains need sophisticated specification and management of chain agents -- their roles, rights, duties and interaction modes -- to ensure auditability. This paper proposes a framework that attacks these problems, which is centered on three main elements to support and manage agent interactions: Contracts, Coordination Plans (a special kind of business process) and Regulations (the business rules). The main contributions are: i) a contract model suitable for agricultural supply chains; ii) a negotiation protocol able to produce such contracts, which allows a wide range of negotiation styles; iii) negotiation implementation via Web services. As a consequence, we maintain independence between business processes and contract negotiation, thereby fostering interoperability among chain processes.},
 author = {E. Bacarin and E. R. M. Madeira and C. B. Medeiros},
 date = {2008-01-01},
 journal = {International Journal of Electronic Commerce},
 keyword = {Article},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/ijec07.pdf},
 note = {Author's version},
 number = {4},
 pages = {71-97},
 title = {Contract e-Negotiation in Agricultural Supply Chains.},
 volume = {12},
 year = {2008}
}


                    	

                        	
@mastersthesis{Pierre2007,
 abstract = {Geographic applications are increasingly influencing our daily activities. Their development requires efforts from multiple teams of experts with different views and authorizations to access data. As a result, several mechanisms have been proposed to control authorization in geographic databases or to provide the use of versions. These mechanisms, however, work in isolation, prioritizing only either data access or versioning systems. This dissertation addresses this issue, by proposing a unified authorization model for databases that faces both problems. The model deals with the access control issue in geographic databases, taking into account the existence of data versioning mechanisms. This model may serve as the basis for cooperative and secure work in applications that use Geographic Information Systems (GIS).},
 author = {Mateus Silva Pierre},
 date = {2007-12-01},
 keyword = {Mastersthesis},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/TeseMateusSilvaPierre.pdf},
 school = {Instituto de Computação - Unicamp},
 title = {Access Control in Multiversion Geographic Databases},
 year = {2007}
}


                    	

                        	
@conference{Macario2007,
 abstract = {Este trabalho descreve desafios e resultados do projeto WebMAPS, um esforço multidisciplinar envolvendo ciências agrárias e de computação, em desenvolvimento na UNICAMP. Seu objetivo é desenvolver uma plataforma baseada em serviços Web para o planejamento agro-ambiental. Requer pesquisa de ponta voltada à especificação e à implementação de software com acesso a vários tipos de informação distribuída - imagens de satélite, dados provenientes de sensores, dados de produção agrícola e dados geográficos.},
 address = {Campos do Jordão - SP},
 author = {Carla G. N. Macário and Claudia B. Medeiros and Rodrigo D. A. Senra},
 booktitle = {IX Brazilian Symposium on GeoInformatics - Geoinfo 2007},
 date = {2007-11-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/webmaps_geoinfo_07.pdf},
 pages = {239-250},
 publisher = {INPE},
 title = {O projeto WebMAPS: desafios e resultados.},
 year = {2007}
}


                    	

                        	
@conference{doMacario2007,
 address = {São Pedro, SP},
 author = {Carla Geovana do Nascimento Macário and Rodrigo Dias Arruda Senra and Claudia Bauzer Medeiros and Ricardo da Silva Torres and Rubens Augusto Camargo Lamparelli and Jurandir Zullo Junior and Jansle Vieira Rocha and Edmundo Roberto Mauro Madeira and Eliane Martins and Maria Cecília Calani Baranauskas and Neucimar Jerônimo Leite.},
 booktitle = {6o. Congresso Brasileiro de Agroinformática - SBIAgro 2007},
 date = {2007-10-01},
 keyword = {Conference},
 pages = {326-330},
 title = {Monitoramento de safras via web: um caso de sucesso em pesquisa multidisciplinar},
 year = {2007}
}


                    	

                        	
@conference{Zegarra2007b,
 author = {J. A. M. Zegarra and N. J. Leite and R. da S. Torres},
 booktitle = {XX Brazilian Symposium on Computer Graphics and Image Processing},
 date = {2007-10-01},
 keyword = {Conference},
 title = {Rotation-Invariant and Scale-Invariant Steerable Pyramid Decomposition for Texture Image Retrieval},
 year = {2007}
}


                    	

                        	
@conference{Pedronetti2007,
 address = {João Pessoa},
 author = {D. C. G. Pedronetti and R. da S. Torres},
 booktitle = {VI Workshop de Teses e Dissertações em Bancos de Dados, XXII Simpósio Brasileiro de Banco de Dados},
 date = {2007-10-01},
 keyword = {Conference},
 title = {Uma plataforma de Serviços de Recomendação para Bibliotecas Digitais},
 year = {2007}
}


                    	

                        	
@conference{Nakai2007b,
 abstract = {The main attractiveness of Web services is their capacity to provide interoperability among heterogeneous distributed systems. Increasingly, companies and organizations have adopted Web services as a way to interoperate with their business partners. In such a scenario, Web services choreography can be applied in the specification of interorganizational business processes. However, the dynamic nature of business partnerships requires mechanisms for agile designing and deploying of choreographies. In this paper, we present an infrastructure that aims to address the above concern. Our approach, which is based on WS-CDL, BPEL, and UDDI standards, aims to reach flexibility by providing mechanisms for sharing, finding and executing choreographies in a friendly manner for the user. We also present a prototype implementation and its application in a supply chain integration system.},
 author = {Alan Massaru Nakai and Edmundo Madeira},
 booktitle = {Proceedings of the I Workshop on Business Process Management (WBPM 2007)},
 date = {2007-10-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/nakai_wbpm07.pdf},
 title = {An Infrastructure to Support Choreographies in Interorganizational Business Processes},
 year = {2007}
}


                    	

                        	
@conference{Jr2007b,
 abstract = {There is a world wide effort to create infrastructures that support multidisciplinary, collaborative and distributed work in scientific research, giving birth to the so-called e-Science environments. At the same time, the proliferation, variety and ubiquity of sensing devices, from satellites to tiny sensors are making huge amounts of data available to scientists. This paper presents a framework with a twofold solution: (i) using a specific kind of component -- DCC -- for homogeneous sensor data acquisition; and (ii) using scientific workflows for flexible composition of sensor data and manipulation software. We present a solution for publishing sensor data tailored to distributed scientific applications.},
 author = {Gilberto Zonta Pastorello Jr and Claudia Bauzer Medeiros and André Santanchè},
 booktitle = {Proc. 1st e-Science Workshop -- XXII Brazilian Symposium on Databases},
 date = {2007-10-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/pastorellojr-medeiros-santenche_eScience.pdf},
 title = {Applying Scientific Workflows to Manage Sensor Data},
 year = {2007}
}


                    	

                        	
@conference{Andalo2007b,
 abstract = {Tensor scale is a morphometric parameter that unifies the representation of local structure thickness, orientation, and anisotropy, which can be used in several computer vision and image processing tasks. In this paper, we exploit this concept for binary images and propose a shape descriptor that encodes region and contour properties in a very efficient way. Experimental results are provided, showing the effectiveness of the proposed descriptor, when compared to other relevant shape descriptors, with regard to their use in content-based image retrieval systems.},
 address = {Rio de Janeiro, Brazil},
 author = {F. A. Andaló and P. Miranda and R. da S. Torres and A. X. Falcão},
 booktitle = {8th International Symposium on Mathematical Morphology},
 date = {2007-10-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/ismm2007.pdf},
 title = {A New Shape Descriptor based on Tensor Scale},
 year = {2007}
}


                    	

                        	
@techreport{Rocha2007,
 abstract = {In this paper, we present a new Hybrid Hierarchical Clustering approach for Image Retrieval. Our method combines features from both divisive and agglomerative clustering paradigms in order to yield good-quality clustering solutions with reduced computational cost. We provide several experiments showing that our technique reduces the number of required comparisons to perform a retrieval without significant loss in effectiveness when compared to flat-based solutions.},
 author = {A. Rocha and J. G. Almeida and R. da S. Torres and S. K. Goldenstein},
 date = {2007-09-01},
 institution = {Institute of Computing, State University of Campinas},
 keyword = {Techreport},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/rocha07tr.pdf},
 number = {IC-07-29},
 title = {A New Hybrid Clustering Approach for Image Retrieval},
 type = {Technical Report},
 year = {2007}
}


                    	

                        	
@conference{Andalo2007b,
 address = {San Antonio, Texas, USA},
 author = {F. A. Andaló and P. Miranda and R. da S. Torres and A. X. Falcão},
 booktitle = {IEEE International Conference on Image Processing},
 date = {2007-09-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/icip2007.pdf},
 title = {Detecting Contour Saliences Using Tensor Scale},
 year = {2007}
}


                    	

                        	
@techreport{Almeida2007,
 abstract = {Content-based image retrieval (CBIR) is a challenging task. Common techniques use only low-level features. However, these solutions can lead to the so-called ‘semantic gap’ problem: images with high feature similarities may be different in terms of user perception. In this paper, our objective is to retrieve images based on color cues which may present some affine transformations. For that, we present CSIR: a new method for comparing images based on discrete distributions of distinctive color and scale image regions. We validate the technique using images with a large range of viewpoints, partial occlusion, changes in illumination, and various domains.},
 author = {J. G. Almeida and A. Rocha and R. da S. Torres and S. K. Goldenstein},
 date = {2007-09-01},
 institution = {Institute of Computing, State University of Campinas},
 keyword = {Techreport},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/almeida07tr.pdf},
 number = {IC-07-28},
 title = {Image Retrieval based on Color and Scale Representative Image Regions (CSIR)},
 type = {Technical Report},
 year = {2007}
}


                    	

                        	
@conference{Digiampietri2007b,
 abstract = {Traceability and Provenance are often used interchangeably in eScience, being associated with the need scientists have to document their experiments, and so allow experiments to be checked and reproduced by others. These terms have, however, different meanings: provenance is more often associated with data origins, whereas traceability concerns the interlinking and execution of processes. This paper proposes a set of mechanisms to deal with this last aspect, the solution is based on database research combined with scientific workflows, plus domain-specific knowledge stored in ontology structures. This meets a need from bioinformatics laboratories, where the majority of computer systems do not support traceability facilities. These mechanisms have been implemented in a prototype, and an example using the genome assembly problem is given.},
 address = {Vancouver, Canada},
 author = {Luciano A. Digiampietri and Claudia B. Medeiros and João C. Setubal and Roger S. Barga},
 booktitle = {Proceedings of the AAAI2007's Workshop on Semantic E-Science (SeS2007)},
 date = {2007-08-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/WS12DigiampietriL.pdf},
 pages = {26-33},
 title = {Traceability Mechanisms for Bioinformatics Scientific Workflows},
 year = {2007}
}


                    	

                        	
@phdthesis{Digiampietri2007,
 abstract = {Bioinformatics activities are growing all over the world, following a proliferation of data and tools. This brings new challenges, such as how to understand and organize these resources, how to exchange and reuse successful experimental procedures (tools and data), and how to provide interoperability among data and tools across different sites, and used for users with distinct profiles. This thesis proposes a computational infrastructure to solve these problems. The infrastructure allows to design, reuse, annotate, validate, share and document bioinformatics experiments. Scientific workflows are the mechanisms used to represent these experiments. Combining research on databases, scientific workflows, artificial intelligence and semantic Web, the infrastructure takes advantage of ontologies to support the specification and annotation of bioinformatics workflows and, to serve as basis for traceability mechanisms. Moreover, it uses artificial intelligence planning techniques to support automatic, iterative and supervised composition of tasks to satisfy the needs of the different kinds of user. The data integration and interoperability aspects are solved combining the use of ontologies, structure mapping and interface matching algorithms. The infrastructure was implemented in a prototype and validated on real bioinformatics data.},
 author = {Luciano Antonio Digiampietri},
 date = {2007-08-01},
 keyword = {PhDThesis},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/digiampietri_tese.pdf},
 school = {Instituto de Computação - Unicamp},
 title = {Management of Bioinformatics Scientific Workflows (partially in portuguese)},
 year = {2007}
}


                    	

                        	
@mastersthesis{Daltio2007,
 abstract = {Biodiversity research requires associating data about living beings and their habitats, constructing sophisticated models and correlating all kinds of information. Data handled are inherently heterogeneous, being provided by distinct (and distributed) research groups, which collect these data using different vocabularies, assumptions, methodologies and goals, and under varying spatio-temporal frames. This poses many kinds of challenges in Computer Science research, from the physical (e.g., diversity of storage structures) to the conceptual level (e.g., diversity of perspectives and of knowledge domains). The adoption of ontologies has been proposed as a means to help solve heterogeneity issues. However, this kind of solution gives birth to new research issues, since it implies handling problems in ontology design, management and sharing. This dissertation presents a new kind of Web Service whose goal is to help in solving such issues. Aondê (which means ̈owl̈ in Tupi, the main branch of native Brazilian languages) is a Web Service that provides a wide range of operations for storage, management, search, ranking, analysis and integration of ontologies. The text covers the specification and implementation of Aondê, which have been validated by a prototype tested with large ontologies and real biodiversity case studies.},
 author = {Jaudete Daltio},
 date = {2007-08-01},
 keyword = {Mastersthesis},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/DissertacaoJaudeteDaltio.pdf},
 school = {Instituto de Computação - Unicamp},
 title = {Aondê: Um Serviço Web de Ontologias para Interoperabilidade em Sistemas de Biodiversidade (Aondê: An Ontology Web Service for Interoperability across Biodiversity Information Systems)},
 year = {2007}
}


                    	

                        	
@conference{Penatti2007,
 address = {Rio de Janeiro, Brazil},
 author = {O. B. Penatti e R. da S. Torres},
 booktitle = {XXVI Concurso de Trabalhos de Iniciação Científica, XXVII Congresso da Sociedade Brasileira de Computação},
 date = {2007-07-01},
 keyword = {Conference},
 title = {Descritor de Relacionamento Espacial baseado em Partições},
 year = {2007}
}


                    	

                        	
@mastersthesis{Ferreira2007,
 abstract = {Relevance Feedback has been used to incorporate the subjectivity of user visual perception in content-based image retrieval tasks. The relevance feedback process consists in the following steps: (i) showing a small set of images; (ii) indication of relevant or irrelevant images by the user; (iii) and finally, learning the user needs from her feedback, and selecting a new set of images to be showed. This procedure is repeated until the user is satisfied. This dissertation presents two content-based image retrieval frameworks with relevance feedback. These frameworks employ Genetic Programming to discover a combination of descriptors that characterize the user perception of image similarity. The use of genetic programming is motivated by its capability of exploring the search space, which deals with the major goal of the proposed frameworks: find, among all combination functions of descriptors, the one that best represents the user needs. Several experiments were conducted to validate the proposed frameworks. These experiments employed three different images databases and color, shape and texture descriptors to represent the content of database images. The proposed frameworks were compared with three other content-based image retrieval methods regarding their efficiency and effectiveness in the retrieval process. Experiment results demonstrate the superiority of the proposed methods. The contributions of this work are: (i) study of different relevance feedback techniques; (ii) proposal of two content-based image retrieval frameworks with relevance feedback, based on genetic programming; (ii) implementation of the proposed methods and their validation with several experiments, and comparison with other methods.},
 author = {Cristiano Dalmaschio Ferreira},
 date = {2007-07-01},
 keyword = {Mastersthesis},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/Dissertacao.pdf},
 school = {Instituto de Computação - Unicamp},
 title = {Image Retrieval with Relevance Feedback based on Genetic Programming},
 year = {2007}
}


                    	

                        	
@conference{Digiampietri2007b,
 abstract = {Web services represent a relevant technology for interoperability. An important step toward the development of applications based on Web services is the ability of selecting and integrating heterogeneous services from different sites. When there is no single service capable of performing a given task, there must be some way to adequately compose basic services to execute this task. The manual composition of Web services is complex and susceptible to errors because of the dynamic behavior and flexibility of the Web. This paper describes and compares AI planning solutions to Web service automatic composition. As a result of this comparison, it proposes an architecture that supports service composition, and which combines AI planning with workflow mechanisms.},
 address = {Rio de Janeiro, Brazil},
 author = {Luciano A. Digiampietri and José J. Pérez-Alcázar and Claudia B. Medeiros},
 booktitle = {Proc. VI Encontro Nacional de Inteligencia Artificial (ENIA)},
 date = {2007-07-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/ArtigoENIA.pdf},
 note = {ISBN 978-85-7669-116-7},
 pages = {983-992},
 title = {AI Planning in Web Services Composition: a review of current approaches and a new solution},
 year = {2007}
}


                    	

                        	
@conference{Daltio2007b,
 abstract = {Biodiversity research requires associating data about living beings and their habitats, integrating from geographical features to domain specifications, often through ontologies. In this context are the so-called Biodiversity Information Systems, new management solutions that allow researchers to analyze species characteristics and their interactions. The goal of this project is to specify and develop an ontology web service that can be used for different biodiversity systems. The main contributions of this work are: specification of the requirements of an ontology service; and the specification and the implementation of an ontology server. This research is directly connected with the first challenge (management of large multimedia data volumes), and provides support to research in challenge 2 (computational modeling in complex systems).},
 address = {Rio de Janeiro, Brazil},
 author = {Jaudete Daltio and Claudia Bauzer Medeiros},
 booktitle = {XXXIV SEMISH: Brazilian National CS Conference},
 date = {2007-07-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/SEMISH.pdf},
 title = {Um Serviço de Ontologias para Sistemas de Biodiversidade (An Ontology Service for Biodiversity Information Systems)},
 year = {2007}
}


                    	

                        	
@conference{Murthy2007,
 author = {U. Murthy and D. Gourdon and R. da S. Torres and M. A. Goncalves and E. A. Fox and L. Delcambre},
 booktitle = {1st Workshop on Digital Library Foundations, ACM IEEE Joint Conference on Digital Libraries},
 date = {2007-06-01},
 keyword = {Conference},
 title = {Extending the 5S Digital Library (DL) Framework: From a Minimal DL towards a DL Reference Model},
 year = {2007}
}


                    	

                        	
@techreport{Jr2007b,
 abstract = {We are facing the proliferation of several kinds of sensing devices, from satellites to tiny sensors. This has opened up new possibilities for us to understand, manage and monitor a given environment, from the small -- e.g., a room -- to the large -- e.g., the planet. This, however, has added a new dimension to the classic problem of heterogeneous data management -- how to handle increasing volumes of sensing data from a wide range of sensors. This report is concerned with the problem of sensor data publication. Our solution involves the design and implementation of a framework for sensor data management, which applies technologies based on Semantic Web standards, components and scientific workflows. Individual sensors or networks are encapsulated into a specific kind of component -- DCC -- which supports homogeneous access to data and software. DCCs are themselves handled by scientific workflows that provide facilities for controlling data production, integration and publication. As a result, applications that require sensor data will instead interact with workflows, being liberated from concerns such as sensor particularities, or provide separate handlers for real time streams. The report also presents initial implementation results.},
 author = {Gilberto Zonta Pastorello Jr and Claudia Bauzer Medeiros and André Santanchè},
 date = {2007-05-01},
 institution = {Institute of Computing, State University of Campinas},
 keyword = {Techreport},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/IC-TR-07-12_pastorellojr.ps},
 number = {IC-07-012},
 title = {Providing homogeneous access for sensor data management},
 type = {Technical Report},
 year = {2007}
}


                    	

                        	
@mastersthesis{Jr2007,
 abstract = {Life on Earth forms a broad and complex network of interactions, which some experts estimate to be composed of up to 80 million different species. Tackling biodiversity is essentially a distributed effort. A research institution, no matter how big, can only deal with a small fraction of this variety. Therefore, to carry ecologically-relevant biodiversity research, one must collect chunks of information on species and their habitats from a large number of institutions and correlate them using geographic, biologic and ecological knowledge. Distribution and heterogeneity inherent to biodiversity data pose several challenges, such as how to find relevant information on the Web, how to solve syntactic and semantic heterogeneity, and how to process a variety of ecological and spatial predicates. This dissertation presents an architecture that exploits advances in data interoperability and semantic Web technologies to meet these challenges. The solution relies on ontologies and annotated repositories to support data sharing, discovery and collaborative biodiversity research. A prototype using real data has implemented part of the architecture.},
 author = {Luiz Celso Gomes Jr},
 date = {2007-05-01},
 keyword = {Mastersthesis},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/dissertacao.pdf},
 school = {Instituto de Computação - Unicamp},
 title = {An architecture for querying biodiversity repositories on the Web},
 year = {2007}
}


                    	

                        	
@mastersthesis{Kondo2007,
 abstract = {A supply chain is a set of activities developed starting from raw materials to final consumers. Supply chains present many research challenges in Computing, such as the modeling of their processes, communication problems between their components, logistics or process and product management. An issues of increasing importance is to enable traceability to ensure the origin and quality control of the products. However, little has been published on implementation aspects to solve this problem. Most papers are related to specific aspects, and do not strive for generic solutions. This work contributes to fill this gap, considering product, process and service traceability within a supply chain. The main contributions are a model for traceability data storage, supported by Web Services-based architecture. This work presents was validated by a prototype, whose tests shows the genericity of the solution.},
 author = {Andréia Akemi Kondo},
 date = {2007-04-01},
 keyword = {Mastersthesis},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/dissertacao-2.pdf},
 school = {Instituto de Computação - Unicamp},
 title = {Management of traceability in food supply chains},
 year = {2007}
}


                    	

                        	
@article{Santanche2007,
 abstract = {The advances of multimedia models and tools popularized the access and production of multimedia contents: in this new scenario, there is no longer a clear distinction between authors and end-users of a production. These user-authors often work in a collaborative way. As end-users, they collectively participate in interactive environments, consuming multimedia artifacts. In their authors’ role, instead of starting from scratch, they often reuse others’ productions, which can be decomposed, fusioned and transformed to meet their goals. Since the need for sharing and adapting productions is felt by many communities, there has been a proliferation of standards and mechanisms to exchange complex digital objects, for distinct application domains. However, these initiatives have created another level of complexity, since people have to define which share/ reuse solution they want to adopt, and may even have to resort to programming tasks. They also lack effective strategies to combine these reused artifacts. This paper presents a solution to this demand, based on a userauthor centered multimedia building block model—the digital content component (DCC). DCCs upgrade the notion of digital objects to digital components, as they homogenously wrap any kind of digital content (e.g., multimedia artifacts, software) inside a single component abstraction. The model is fully supported by a software infrastructure, which exploits the model’s semantic power to automate low level technical activities, thereby freeing user-authors to concentrate on creative tasks. Model and infrastructure improve recent research initiatives to standardize the means of sharing and reuse domain specific digital contents. The paper’s contributions are illustrated using examples implemented in a DCC-based authoring tool, in real life situations.},
 author = {André Santanchè and Claudia Bauzer Medeiros and Gilberto Zonta Pastorello Jr},
 date = {2007-03-01},
 journal = {Multimedia Systems Journal},
 keyword = {Article},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/santanche07multsyst.pdf},
 note = {DOI 10.1007/s00530-006-0050-0},
 number = {4-5},
 pages = {403-421},
 title = {User-author centered multimedia building blocks},
 volume = {12},
 year = {2007}
}


                    	

                        	
@mastersthesis{Nakai2007,
 abstract = {A supply chain is the set of activities involved in the creation, transformation and distribution of a product, from raw material to the consumer. Supply chainś participants can work in an integrated way to optimize their performance and increase their commercial competitiveness. From the technological point of view, the distributed, autonomous and heterogeneous nature of supply chainś participants raises difficulties when we consider the automation of interorganizational processes. This work proposes an infrastructure based on Web services choreographies for coordination of the activities that compose the interorganizational business processes of the supply chains. This infrastructure implements a coordination model that aims to make easier the design and the deployment of the interorganizational business processes. In this model, processes are represented by WS-CDL choreographies, which are mapped to executable BPEL coordination plans. The work also presents a prototype of the infrastructure to validate it.},
 author = {Alan Massaru Nakai},
 date = {2007-03-01},
 keyword = {Mastersthesis},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/dissertacao-Nakai07.pdf},
 school = {Instituto de Computação - Unicamp},
 title = {An Infrastructure based on Web Service Choreography for Activity Coordination in Supply Chains},
 year = {2007}
}


                    	

                        	
@conference{Kondo2007b,
 abstract = {Supply Chains present many research challenges in Computing, such as the modeling of theirs processes, communication problems between theirs components, logistics and processes management. This paper presents a supply chain traceability model that relies on a Web service-based architecture to ensure interoperability. Geared towards assisting quality control in the agricultural domain, the model allows to trace products, processes and services inside chain. The model has been validated for real life case studies and theWeb service implementation is under way.},
 address = {Barcelona, Spain},
 author = {Andréia Akemi Kondo and Claudia Bauzer Medeiros and Evandro Bacarin and Edmundo Roberto Mauro Madeira},
 booktitle = {Proc. 3rd International Conference on Web Information Systems and Technologies (WEBIST)},
 date = {2007-03-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/webist07.pdf},
 pages = {121-127},
 publisher = {INSTICC},
 title = {Traceability in Food for Supply Chains.},
 year = {2007}
}


                    	

                        	
@mastersthesis{Andalo2007,
 abstract = {In the past few years, the number of image collections available has increased. In this scenery, there is a demand for information systems for storing, indexing, and retrieving these images. One of the main adopted solutions is to use content-based image retrieval systems (CBIR), that have the ability to, for a given query image, return the most similar images stored in the database. To answer this kind of query, it is important to have an automated process for content characterization and, for this purpose, the CBIR systems use image descriptors based on color, texture and shape of the objects within the images. In this work, we propose shape descriptors based on Tensor Scale. Tensor Scale is a morphometric parameter that unifies the representation of local structure thickness, orientation, and anisotropy, which can be used in several computer vision and image processing tasks. Besides the shape descriptors based on this morphometric parameter, we present a study of algorithms for Tensor Scale computation. The main contributions of this work are: (i) study of image descriptors based on color, texture and shape descriptors; (ii) study of algorithms for Tensor Scale computation; (iii) proposal and implementation of a contour salience detector based on Tensor Scale; (iv) proposal and implementation of new shape descriptors based on Tensor Scale; and (v) validation of the proposed descriptors with regard to their use in content-based image retrieval systems, comparing them, experimentally, to other relevant shape descriptors, recently proposed.},
 author = {Fernanda Alcântara Andaló},
 date = {2007-03-01},
 keyword = {Mastersthesis},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/dissertacao-1.pdf},
 school = {Instituto de Computação - Unicamp},
 title = {Descritores de Forma baseados em Tensor Scale},
 year = {2007}
}


                    	

                        	
@article{Santanche2007b,
 abstract = {The Web is evolving from a space for publication/consumption of documents to an environment for collaborative work, where digital content can travel and be replicated, adapted, decomposed, fusioned, and transformed. We call this the Fluid Web perspective. This view requires a thorough revision of the typical document-oriented approach that permeates content management on the Web. This paper presents our solution for the Fluid Web, which allows moving from the document-oriented to a content-oriented perspective, where ̈content” can be any digital object. The solution is based on two axes: a self-descriptive unit to encapsulate any kind of content artifact—the Digital Content Component (DCC) and a Fluid Web infrastructure that provides management and deployment of DCCs through the Web, and whose goal is to support collaboration on the Web. Designed to be reused and adapted, DCCs encapsulate data and software using a single structure, thus allowing homogeneous composition and processing of any digital content, executable or not. These properties are exploited by our Fluid Web infrastructure, which supports DCC multilevel annotation and discovery mechanisms, configuration management, and version control. Our work extensively explores taxonomic ontologies and Semantic Web standards, which serve as a semantic bridge, unifying DCC management vocabularies, and improving DCC description/indexing/discovery. DCCs and infrastructure have been implemented and are illustrated by means of a running example, for a scientific application.},
 author = {André Santanchè and Claudia Bauzer Medeiros},
 date = {2007-02-01},
 journal = {IEEE Transactions on Knowledge and Data Engineering},
 keyword = {Article},
 number = {2},
 pages = {324-341},
 title = {A Component Model and an Infrastructure for the Fluid Web.},
 volume = {19},
 year = {2007}
}


                    	

                        	
@techreport{Ferreira2007b,
 abstract = {In the last years, large digital image collections are generated, manipulated, and stored in databases. In this scenery, it is very important to develop mechanisms to provide automatic means to retrieve images in an efficient and effective way. However, the subjectivity of the user perception of an image usually hampers a fully automatic search and retrieval. Relevance Feedback is one of the commonest approaches to overcome this difficult. In this paper, a new content-based image retrieval framework with relevance feedback is proposed. This framework uses Genetic Programming (GP) to learn the user needs. The objective of this learning method is to find a function that combines different values of similarity, from distinct descriptors, and best encodes the user perception of image similarity. Several experiments are performed to validate the proposed method, aiming to compare our work with other relevance feedback techniques. The experiment results show that the proposed method outperforms all of them.},
 author = {Cristiano D. Ferreira and Ricardo da S. Torres},
 date = {2007-02-01},
 institution = {Institute of Computing, State University of Campinas},
 keyword = {Techreport},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/07-05.pdf},
 number = {IC-07-05},
 title = {Image retrieval with relevance feedback based on genetic programming},
 type = {Technical Report},
 year = {2007}
}


                    	

                        	
@article{daTorres2007,
 abstract = {This work exploits the resemblance between content-based image retrieval and image analysis with respect to the design of image descriptors and their effectiveness. In this context, two shape descriptors are proposed: contour saliences and segment saliences. Contour saliences revisits its original definition, where the location of concave points was a problem, and provides a robust approach to incorporate concave saliences. Segment saliences introduces salience values for contour segments, making it possible to use an optimal matching algorithm as distance function. The proposed descriptors are compared with convex contour saliences, curvature scale space, and beam angle statistics using a fish database with 11,000 images organized in 1100 distinct classes. The results indicate segment saliences as the most effective descriptor for this particular application and confirm the improvement of the contour salience descriptor in comparison with convex contour saliences.},
 author = {R. da S. Torres and A. X. Falcão},
 date = {2007-01-01},
 journal = {Image and Vision Computing},
 keyword = {Article},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/torres07ivc.pdf},
 number = {1},
 pages = {3-13},
 title = {Contour Salience Descriptors for Effective Image Retrieval and Analysis},
 volume = {25},
 year = {2007}
}


                    	

                        	
@conference{Zegarra2007,
 abstract = {This paper proposes a new texture classification system, which is distinguished by: (1) a new rotation-invariant image descriptor based on Steerable Pyramid Decomposition, and (2) by a novel multi-class recognition method based on Optimum Path Forest. By combining the discriminating power of our image descriptor and classifier, our system uses small size feature vectors to characterize texture images without compromising overall classification rates. State-of-the-art recognition results are further presented on the Brodatz dataset. High classification rates demonstrate the superiority of the proposed method.},
 author = {J. A. M. Zegarra and J. P. Papa and N. J. Leite and R. da S. Torres and A. X. Falcão},
 booktitle = {International Symposium on Visual Computing (ISVC)},
 date = {2007-01-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/zegarra07isvc.pdf},
 title = {Rotation-invariant Texture Recognition},
 year = {2007}
}


                    	

                        	
@conference{Mariote2007,
 abstract = {Sensor networks have increased the amount and variety of temporal data available, requiring the definition of new techniques for data mining. Related research typically addresses the problems of indexing, clustering, classification, summarization, and anomaly detection. They present many ways for describing and comparing time series, but they focus on their values. This paper concentrates on a new aspect - that of describing oscillation patterns. It presents a technique for time series similarity search, based on multiple temporal scales, defining a descriptor that uses the angular coefficients from a linear segmentation of the curve that represents the evolution of the analyzed series. Preliminary experiments with real datasets showed that our approach correctly characterizes the oscillation of time series.},
 author = {Leonardo Mariote and Claudia Bauzer Medeiros and Ricardo Torres},
 booktitle = {International Workshop on spatial and spatio-temporal data mining  - SSTDM},
 date = {2007-01-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/mariote-oscillationTrends.pdf},
 pages = {643-648},
 title = {Diagnosing Similarity of Oscillation Trends in Time Series},
 year = {2007}
}


                    	

                        	
@techreport{Kim2007,
 abstract = {Research in personalization, including recommender systems, focuses on applications such as in online shopping malls and simple information systems. These systems consider user profile and item information obtained from data explicitly entered by users - where it is possible to classify items involved and to make personalization based on a direct mapping from user or user group to item or item group. However, in complex, dynamic, and professional information systems, such as Digital Libraries, additional capabilities are needed to achieve personalization to support their distinctive features: large numbers of digital objects, dynamic updates, sparse rating data, biased rating data on specific items, and challenges in getting explicit rating data from users. In this report, we present techniques for collecting, storing, processing, and utilizing implicit rating data of Digital Libraries for analysis and decision support. We present our pilot study to find virtual user groups using implicit rating data. We demonstrate the effectiveness of implicit rating data for characterizing users and finding virtual user communities, through statistical hypothesis testing. Further, we describe a visual data mining tool named VUDM (Visual User model Data Mining tool) that utilizes implicit rating data. We provide the results of formative evaluation of VUDM and discuss the problems raised and plans for further studies.},
 author = {S. Kim and E. A. Fox and W. Fan and C. North and D. Tatar and R. da S. Torres},
 date = {2007-01-01},
 institution = {Computer Science Department, Virginia Tech},
 keyword = {Techreport},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/kim07tr.pdf},
 number = {TR-07-20},
 title = {Design and Evaluation of Techniques to Utilize Implicit rating Data in Complex Information Systems},
 type = {Technical Report},
 year = {2007}
}


                    	

                        	
@conference{Jr2007b,
 abstract = {To carry ecologically-relevant biodiversity research, one must collect chunks of information on species and their habitats from a large number of institutions and correlate them using geographic, biologic and ecological knowledge. Distribution and heterogeneity inherent to biodiversity data pose several challenges, such as how to find and merge relevant information on the Web, and process a variety of ecological and spatial predicates. This paper presents a framework that exploits advances in data interoperability and Semantic Web technologies to meet these challenges. The solution relies on ontologies and annotated repositories to support data sharing, discovery and collaborative biodiversity research. A prototype using real data has implemented part of the framework.},
 author = {Luiz Celso Gomes Jr and Claudia Bauzer Medeiros},
 booktitle = {Proceedings GeoInfo - Brazilian Geoinformatics Symposium},
 date = {2007-01-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/gomesmedeiros-geoinfo07.pdf},
 publisher = {INPE - SBC},
 title = {Ecologically-aware Queries for Biodiversity Research},
 year = {2007}
}


                    	

                        	
@article{Digiampietri2007b,
 abstract = {Bioinformatics activities are growing all over the world, with proliferation of data and tools. This brings new challenges, such as how to understand and organize these resources, how to exchange and reuse successful experimental procedures, tools and data, and how to provide interoperability among data and tools across different sites, and for distinct user profiles. This paper describes an effort toward these directions. It is based on combining research on ontology management, AI and scientific workflows, on the Semantic Web, to design, reuse, annotate and document bioinformatics experiments. The resulting framework takes advantage of ontologies to support the specification and annotation of bioinformatics workflows, and to serve as the basis for tracking data provenance. Moreover, it uses AI planning techniques to support automatic or interactive composition of tasks. These ideas have been implemented in a prototype and validated on real bioinformatics data.},
 author = {Luciano Antonio Digiampietri and José de J. Pérez-Alcázar and Claudia Bauzer Medeiros},
 date = {2007-01-01},
 journal = {International Journal of Bioinformatics Research and Applications},
 keyword = {Article},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/IJBRA-3302-Digiampietri-et-al.pdf},
 note = {Special Issue on "Ontologies for Bioinformatics", ISSN 1744-5485},
 number = {3},
 pages = {268-285},
 title = {An ontology-based framework for bioinformatics workflows},
 volume = {3},
 year = {2007}
}


                    	

                        	
@conference{Borges2007,
 abstract = {This paper presents an approach that helps to discover geographic locations from the recognition, extraction, and geocoding of urban addresses found in Web pages. Experiments that evaluate the presence and incidence of urban addresses in Web pages are de- scribed. Experimental results, based on a collection of over 4 mil- lion documents from the Brazilian Web, show the feasibility and effectiveness of the proposed method.},
 author = {Karla A. V. Borges and Alberto H. F. Laender and Claudia Bauzer Medeiros and Clodoveu Davis Jr},
 booktitle = {IV Workshop on Geographic Information Retrieval},
 date = {2007-01-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/gir-l05-borges.pdf},
 note = {co-located with CIKM 2007},
 publisher = {ACM},
 title = {Discovering Geographic Locations in Web Pages Using Urban Addresses},
 year = {2007}
}


                    	

                        	
@techreport{Bacarin2007b,
 abstract = {This paper presents an approach to support choreography in agricultural supply chains. It depicts a model for this kind of chain that considers both static and dynamic aspects, and their mapping to an underlying architecture. In particular, the model emphasizes mutual agreements, coordination of activities, quality enforcement and activity documentation. The architecture is centered on mapping chain elements to Web Services and their dynamics to the choreography of services. A case study, for soy supply chains, is used to motivate the approach.},
 author = {Evandro Bacarin and Edmundo R. M. Madeira and Claudia M. B. Medeiros},
 date = {2007-01-01},
 institution = {Institute of Computing, State University of Campinas},
 keyword = {Techreport},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/rt-07-07.pdf},
 number = {RT-07-07},
 title = {Using choreography to support collaboration in agricultural supply chains},
 type = {Technical Report},
 year = {2007}
}


                    	

                        	
@conference{Bacarin2007,
 abstract = {E-contracting, i.e., establishing and enacting electronic contracts, has become important because of technological advances (e.g., the availability of web services) and more open markets. However, the establishment of an e-contract is complicated and error prone. There are multiple negotiation styles ranging from auctions to bilateral bargaining. This paper provides an approach for modeling multi-party negotiation protocols in colored Petri nets. It is shown how different negotiation styles can be modeled in a unified and consistent way. Moreover, CPN Tools is used to analyze the resulting colored Petri nets. Simulation can be used for both validation and performance analysis, while state-space analysis can be used to discover anomalies in various multi-part negotiation protocols.},
 author = {E. Bacarin and W.M.P van der Aalst and E. Madeira and C.B. Medeiros},
 booktitle = {Proc. CPN 07 - Eighth Workshop and Tutorial on Practical Use of Coloured Petri Nets and the CPN Tools},
 date = {2007-01-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/cpn07-final-bacarin-aalst-madeira-medeiros.pdf},
 title = {Towards Modeling and Simulating a Multi-party Negotiation Protocol with Colored Petri Nets},
 year = {2007}
}


                    	

                        	
@mastersthesis{Martins2006,
 abstract = {The goal of the WebMaps project is the specification and development of a WEB information system to support crop planning and monitoring in Brazil. This kind of project involves state-of-the art research all over the world. One of the problems faced by WebMaps is database design. This work attacks this issue, discussing the project´s needs and proposing a basic database that supports management of users, properties and parcels, as well as other kinds of data, especially satellite images. The main contributions of this work are: specification of a spatio-temporal database model; specification of sets of temporal, spatial and spatio-temporal queries; and the implementation of a prototype, in Postgresql/Postgis.},
 author = {Rodrigo Grassi Martins},
 date = {2006-12-01},
 keyword = {Mastersthesis},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2015/09/MartinsRodrigoGrassi.pdf},
 school = {Instituto de Computação - Unicamp},
 title = {A Proposal for the Database of the WebMaps Project},
 year = {2006}
}


                    	

                        	
@conference{Sasaoka2006,
 abstract = {The problem of access control in databases consists of determining when (and if) users or applications can access stored data, and what kind of access they are allowed. This paper discusses this problem for geographic databases, where constraints imposed on access control management must consider the spatial location context. The model and solution provided are motivated by problems found in AM/FM applications developed in the management of telephone infrastructure in Brazil, in a real life situation.},
 address = {Tucson, Arizona},
 author = {Liliana Kasumi Sasaoka and Claudia Bauzer Medeiros},
 booktitle = {Proc 3rd International Workshop on Conceptual Modeling for Geographic Information Systems (CoMoGIS2006)},
 date = {2006-11-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/sasaokamedeiros06.pdf},
 note = {Tucson, Arizona},
 title = {Access Control in Geographic Databases.},
 year = {2006}
}


                    	

                        	
@conference{Zegarra2006b,
 abstract = {This paper presents a real time system to guide the search and the retrieval in fingerprint image databases considering both retrieval accuracy and speed. For that purposes, we use multiresolution-based feature extraction and indexing methods considering the textural information inherent to fingerprint images. The extracted feature vectors are used to compute the distance between the fingerprint query image to all the fingerprints in the database and the N most similar images are then retrieved. The focus of this work is to study the utility of multiresolution transforms on the domain of fingerprint recognition.},
 author = {J. A. M. Zegarra and Neucimar J. Leite and Ricardo da Silva Torres},
 booktitle = {Workshop of Theses and Dissertations, XIX Brazilian Symposium on Computer Graphics and Image Processing},
 date = {2006-10-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/zegarra06sibgrapi.pdf},
 note = {Manaus, Brazil},
 title = {Multiresolution Features for Fingerprint Image Retrieval.},
 year = {2006}
}


                    	

                        	
@conference{Zegarra2006,
 abstract = {Two kinds of fingerprint identification approaches have been proposed in the literature to reduce the number of one-to-many comparisons during fingerprint image retrieval, namely, exclusive and continuous classification. Although exclusive classification approaches reduce the number of comparisons, they present some shortcomings, including fingerprint ambiguous classification, and unbalanced fingerprint classification distribution. On the other side, continuous classification approaches have not been further studied. In this context, we propose an original continuous approach to guide the search and the retrieval in fingerprint image databases considering both effectiveness and retrieval speed. For that purposes, we use feature extraction and indexing methods considering the textural and directional information contained in fingerprint images. Preliminary results of our work involves a comparative study of several textural image descriptors obtained by combining different types of the Wavelet Transform with similarity measures. From our experiments we can conclude that the best retrieval accuracy was achieved by combining Gabor Wavelets (GWs) with the Square Chord similarity measure. Furthermore, the presence of noise and distortions in fingerprint images have affected the overall retrieval accuracy.},
 address = {Florianópolis, Brazil},
 author = {J. A. M. Zegarra and Neucimar J. Leite and Ricardo da Silva Torres},
 booktitle = {V Workshop of Theses and Dissertations, XXI Brazilian Symposium on Databases},
 date = {2006-10-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/zegarra06sbbd.pdf},
 note = {Florianópolis, Brazil},
 title = {Efficient and Effective Content-based Image Retrieval Framework for Fingerprint Databases.},
 year = {2006}
}


                    	

                        	
@conference{Digiampietri2006,
 abstract = {Bioinformatics activities present new challenges, such as how to exchange and reuse successful experimental procedures, tools and data, and how to understand and provide interoperability among data and tools across different sites, for distinct user profiles. This thesis is an effort towards these directions. It is based on combining research on databases, AI and scientific workflows, on the Semantic Web, to design, reuse, annotate and document bioinformatics experiments. The resulting framework allows the integration of heterogeneous data and tools and the design of experiments as scientific workflows, which are stored in databases. Moreover, it takes advantage of the notion of planning in AI to support automatic or interactive composition of tasks. These ideas are being implemented in a prototype and validated on real bioinformatics data.},
 address = {Florianópolis, SC, Brazil},
 author = {Luciano Antonio Digiampietri and Joao Carlos Setubal and Claudia Bauzer Medeiros},
 booktitle = {Proceedings of the V Workshop Thesis and Dissertations on Databases},
 date = {2006-10-01},
 keyword = {Conference},
 link = {http://www.lis.ic.unicamp.br/wp-content/uploads/2014/09/2006_WTDBD2006.pdf},
 title = {Bioinformatics scientific workflows: combining databases, AI and Web services},
 year = {2006}
}