2014_workshop
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2014_workshop [2014/10/09 13:56] johan [Thursday, October the 9th, 2014] |
2014_workshop [2014/12/10 12:28] (current) faron [Thursday, October the 9th, 2014] |
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| **Scientific questions:** | **Scientific questions:** | ||
| - | - Reference model. Taxonomies or ontologies can be used as reference model. Is this the most appropriate reference model? What are the target models of the methods presented. | + | - From a read web of data to a read/write web of data: what solutions are proposed so far? Changes back to the source databases or written apart? What are the future perspectives? |
| - Query language. SPARQL can be used as query language to access data in heterogeneous databases. Is it the most appropriate query language? What are the query languages applicable to the methods presented. | - Query language. SPARQL can be used as query language to access data in heterogeneous databases. Is it the most appropriate query language? What are the query languages applicable to the methods presented. | ||
| - How to mediate various data sources (Pros and cons of each approach. Use cases. Are there hybrid approaches?): | - How to mediate various data sources (Pros and cons of each approach. Use cases. Are there hybrid approaches?): | ||
| Line 62: | Line 62: | ||
| * at coarse-grain (each data repository) | * at coarse-grain (each data repository) | ||
| * at fine-grain (each entity within a data repository) | * at fine-grain (each entity within a data repository) | ||
| + | - Reference model. Taxonomies or ontologies can be used as reference model. Is this the most appropriate reference model? What are the target models of the methods presented. | ||
| === Session 5: Biomedical ontologies === | === Session 5: Biomedical ontologies === | ||
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| === 14:30 - 17:30, Session 1: Biomedical data federation in practice: feedback on existing approaches === | === 14:30 - 17:30, Session 1: Biomedical data federation in practice: feedback on existing approaches === | ||
| * Camille Maumet (University of Warwick, UK): {{::2014_01_camille_maumet_credible_workshop.pdf|Supporting image-based meta-analysis with NIDM: Standardised reporting of neuroimaging results}} | * Camille Maumet (University of Warwick, UK): {{::2014_01_camille_maumet_credible_workshop.pdf|Supporting image-based meta-analysis with NIDM: Standardised reporting of neuroimaging results}} | ||
| - | * Silvia Olabarriaga, (Amsterdam Medical Center, NL): Challenges for services integration into science gateways: the local story of the AMC | + | * Silvia Olabarriaga, (Amsterdam Medical Center, NL): {{::2014_02_credible-olabarriaga.pdf|Challenges for services integration into science gateways: the local story of the AMC}} |
| * Pascal Neveu (INRA Montpellier, FR): {{::2014_03_neveu.pdf|From Gene To The Bottle}} | * Pascal Neveu (INRA Montpellier, FR): {{::2014_03_neveu.pdf|From Gene To The Bottle}} | ||
| - | * Frédérique Segond (Viseo, FR): Language and knowledge technologies to properly model textual medical data and support better reasoning | + | * Frédérique Segond (Viseo, FR): {{::2014_04_pre_sentationcredible2014_last.pdf|Language and knowledge technologies to properly model textual medical data and support better reasoning}} |
| * Panel discussion | * Panel discussion | ||
| ==== Thursday, October the 9th, 2014 ==== | ==== Thursday, October the 9th, 2014 ==== | ||
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| * Harald Sack (U. Potsdam, DE): [[http://de.slideshare.net/lysander07/exploratory-search-based-on-linked-open-data|The Journey is the Reward - Exploratory Semantic Search based on Linked Data]] | * Harald Sack (U. Potsdam, DE): [[http://de.slideshare.net/lysander07/exploratory-search-based-on-linked-open-data|The Journey is the Reward - Exploratory Semantic Search based on Linked Data]] | ||
| - | * Martin Peters (U. Dortmund, DE): Rule-based reasoning using GPUs | + | * Martin Peters (FH Dortmund U., DE): {{::2014_06_peters_credible_2014.pdf|Rule-based reasoning using GPUs}} |
| - | * Guy Melançon (U. Bordeaux): Visual Analytics Supporting Rule Based Modeling | + | * Guy Melançon (U. Bordeaux): {{::2014_07_reasoning_with_graphs.pdf|Visual Analytics Supporting Rule Based Modeling}} |
| * Christian De Sainte Marie (IBM): Business rules engines | * Christian De Sainte Marie (IBM): Business rules engines | ||
| * Panel discussion | * Panel discussion | ||
| Line 103: | Line 104: | ||
| * Ruben Verborgh (Ghent University): [[http://www.slideshare.net/RubenVerborgh/querying-data-on-the-web-client-or-server|Querying data on the Web – client or server?]] | * Ruben Verborgh (Ghent University): [[http://www.slideshare.net/RubenVerborgh/querying-data-on-the-web-client-or-server|Querying data on the Web – client or server?]] | ||
| - | * Ester Pacitti (U. Montpellier 2 / INRIA, FR): Profile Diversity for Query Processing using Users Recommendations | + | * Ester Pacitti (U. Montpellier 2 / INRIA, FR): {{::2014_10_pacitti-credible.pdf|Profile Diversity for Query Processing using Users Recommendations}} |
| - | * Axel-Cyrille Ngonga Ngomo (U. Leipzig): Hibiscus project, sources selections | + | * Axel-Cyrille Ngonga Ngomo (U. Leipzig): {{::2014_11_hibiscuscredible.pdf|HIBISCUS: hypergraph-based sources selection for federated SPARQL queries}} |
| * Panel discussion | * Panel discussion | ||
| === 15:30 - 17:30, Session 4: Data mediation === | === 15:30 - 17:30, Session 4: Data mediation === | ||
| - | * Pascal Molli (U. Nantes, FR): Towards Writable and Scalable Linked Open Data | + | * Pascal Molli (U. Nantes, FR): {{::2014_12_credible2014.pptx|Towards Writable and Scalable Linked Open Data}} |
| - | * Franck Michel (CNRS, FR): xR2RML, an R2RML extension for the translation of non-relational databases into RDF | + | * Franck Michel (CNRS, FR): {{:michel_-_an_r2rml_extension_for_the_translation_of_non-relational_databases_to_rdf.pdf|xR2RML, an R2RML extension for the translation of non-relational databases into RDF}} |
| - | * Freddy Priyatna (U. Polytechnic Madrid, SP): An Overview of the Research Carried Out at Data Integration Group - OEG | + | * Freddy Priyatna (U. Polytechnic Madrid, SP): {{::2014_14_fpriyatna-credible2014.pdf|An Overview of the Research Carried Out at Data Integration Group - OEG}} |
| * Panel discussion | * Panel discussion | ||
| ==== Friday, October the 10th, 2014 ==== | ==== Friday, October the 10th, 2014 ==== | ||
| - | === 9:00 - 12:00, Session 5: Biomedical ontologies === | + | === 9:00 - 11:30, Session 5: Biomedical ontologies === |
| - | * Simon Jupp (EBI, UK): BiomedBridges project | + | * Simon Jupp (EBI, UK): {{::2014_15_cmpo-credible-2014.pdf|BiomedBridges project}} |
| - | * Heiner Oberkampf (Siemens, DE): Expressing Medical Image Measurements using Open Biological and Biomedical Ontologies | + | * Heiner Oberkampf (Siemens, DE): {{::2014_16_expressing_medical_image_measurements_using_obo_ontologies.pdf|Expressing Medical Image Measurements using Open Biological and Biomedical Ontologies}} |
| * Alan Ruttenberg (University at Buffalo, School of Dental Medicine, USA): What should the role of biomedical ontology in imaging be? | * Alan Ruttenberg (University at Buffalo, School of Dental Medicine, USA): What should the role of biomedical ontology in imaging be? | ||
| - | * Bernard Gibaud (INSERM, FR): ontology modelling needs for image biomarkers description | + | * Bernard Gibaud (INSERM, FR): {{::2014_18_bernard-gibaud-crediblev2.pdf|Ontology modelling needs for image biomarkers description}} |
| * Panel discussion | * Panel discussion | ||
| === Workshop conclusions === | === Workshop conclusions === | ||
| - | * 12:00, Johan Montagnat (CNRS, FR) | + | * 11:30, Johan Montagnat (CNRS, FR) |
| ====== Abstracts ====== | ====== Abstracts ====== | ||
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| * Ester Pacitti (U. Montpellier 2 / INRIA, FR): "Profile Diversity for Query Processing using Users Recommendations". //Many scientific fields produce and consume a considerable amount of diverse data (e.g. biology , astronomy, physics) stored in different heterogeneous sites, and produced by different types of users profiles. We investigate two different use cases: a) In the domain of plant phenotyping, there has recently been increasing interests in finding diverse data coming from different research communities. b)In botany, the emergence of citizen sciences has fostered the creation of large and structured communities of nature observers. In this context, there is a need to retrieve diverse plant observations from a diverse spectrum of plant families, genus and species. In this talk I will present some new issues of profile diversity, a novel idea in searching and recommending scientific items (e.g. documents, images, datasets, etc), and how profile diversity can be deployed in different kinds of infrastructures (centralized and distributed).// | * Ester Pacitti (U. Montpellier 2 / INRIA, FR): "Profile Diversity for Query Processing using Users Recommendations". //Many scientific fields produce and consume a considerable amount of diverse data (e.g. biology , astronomy, physics) stored in different heterogeneous sites, and produced by different types of users profiles. We investigate two different use cases: a) In the domain of plant phenotyping, there has recently been increasing interests in finding diverse data coming from different research communities. b)In botany, the emergence of citizen sciences has fostered the creation of large and structured communities of nature observers. In this context, there is a need to retrieve diverse plant observations from a diverse spectrum of plant families, genus and species. In this talk I will present some new issues of profile diversity, a novel idea in searching and recommending scientific items (e.g. documents, images, datasets, etc), and how profile diversity can be deployed in different kinds of infrastructures (centralized and distributed).// | ||
| - | |||
| - | * Axel-Cyrille Ngonga Ngomo (U. Leipzig): Hibiscus project, sources selections | ||
| * Ruben Verborgh (Ghent University): "Querying data on the Web – client or server?". //After 15 years of Semantic Web research, we are still struggling to make things scale. How can we reliably execute complex queries over data on the Web, without having to copy that data to our own database? If we really want “Web” querying, we need a contract between clients and servers with a different balance. This talk invites you to think about new interfaces, starting from a concrete proposal with proven availability, and aims to start a discussion about the involved trade-offs.// | * Ruben Verborgh (Ghent University): "Querying data on the Web – client or server?". //After 15 years of Semantic Web research, we are still struggling to make things scale. How can we reliably execute complex queries over data on the Web, without having to copy that data to our own database? If we really want “Web” querying, we need a contract between clients and servers with a different balance. This talk invites you to think about new interfaces, starting from a concrete proposal with proven availability, and aims to start a discussion about the involved trade-offs.// | ||
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| * Guy Melançon (U. Bordeaux), Visual Analytics Supporting Rule Based Modeling. //The talk will go over our efforts in recent years trying to build a visual analytics system supporting rule-based modeling. The PORGY framework we build and distribute supports tasks that were carefully identified as central to modeling with rules. The system also relies on a strategy language steering rule application, and actually being a crucial part of models.// | * Guy Melançon (U. Bordeaux), Visual Analytics Supporting Rule Based Modeling. //The talk will go over our efforts in recent years trying to build a visual analytics system supporting rule-based modeling. The PORGY framework we build and distribute supports tasks that were carefully identified as central to modeling with rules. The system also relies on a strategy language steering rule application, and actually being a crucial part of models.// | ||
| - | |||
| - | * Simon Jupp (EBI, UK): BiomedBridges project | ||
| * Heiner Oberkampf (Siemens, DE): "Expressing Medical Image Measurements using Open Biological and Biomedical Ontologies". //Radiological images in include rich and complex information that radiologists must summarize with just a few measurements. It is crucial that these measurements be comparable between patients, to assess abnormalities, and between examinations of the same patient, to track changes in health. We show how radiology measurements can be represented in detail using the Ontology for Biomedical Investigations and other Open Biological and Biomedical Ontologies, then describe how this representation allows us to compare measurements against normal values and across consecutive examinations.// | * Heiner Oberkampf (Siemens, DE): "Expressing Medical Image Measurements using Open Biological and Biomedical Ontologies". //Radiological images in include rich and complex information that radiologists must summarize with just a few measurements. It is crucial that these measurements be comparable between patients, to assess abnormalities, and between examinations of the same patient, to track changes in health. We show how radiology measurements can be represented in detail using the Ontology for Biomedical Investigations and other Open Biological and Biomedical Ontologies, then describe how this representation allows us to compare measurements against normal values and across consecutive examinations.// | ||
2014_workshop.1412855817.txt.gz · Last modified: 2014/10/09 13:56 by johan
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