BioRegistry: Automatic extraction of metadata for biological database retrieval and discovery
Identifieur interne : 002F11 ( Main/Exploration ); précédent : 002F10; suivant : 002F12BioRegistry: Automatic extraction of metadata for biological database retrieval and discovery
Auteurs : Marie-Dominique Devignes [France] ; Philippe Franiatte ; Nizar Messai ; Emmanuel Bresso ; Amedeo Napoli [France] ; Malika Smaïl-Tabbone [France]Source :
English descriptors
- mix :
Abstract
The need for a well-maintained searchable directory is an important issue with regard to the numerous biological databases produced by genomic and post-genomic research. The BioRegistry repository aims to associate content metadata belonging to a biomedical thesaurus with biological databases in view of retrieval or discovery. It is automatically generated from a publicly available list of biological databases. The querying modalities include a search by semantic similarity. The system performance is evaluated in terms of precision and recall on a collection test. A classification method is proposed for browsing and discovering databases through the BioRegistry.
Url:
DOI: 10.1504/IJMSO.2010.034043
Affiliations:
- France
- Grand Est, Lorraine (région)
- Nancy
- Institut national polytechnique de Lorraine, Université Nancy 2, Université de Lorraine
Links toward previous steps (curation, corpus...)
- to stream Hal, to step Corpus: 001263
- to stream Hal, to step Curation: 001263
- to stream Hal, to step Checkpoint: 002870
- to stream Main, to step Merge: 002F69
- to stream Main, to step Curation: 002F11
Le document en format XML
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avenue de la Libération, BP 454, 54001 Nancy cedex</addrLine><country key="FR"></country></address></desc></org></tutelle><tutelle active="#struct-300293" type="indirect"><org type="institution" xml:id="struct-300293" status="OLD"><orgName>Institut National Polytechnique de Lorraine</orgName><orgName type="acronym">INPL</orgName><date type="end">2011-12-31</date><desc><address><country key="FR"></country></address></desc></org></tutelle><tutelle active="#struct-2496" type="direct"><org type="laboratory" xml:id="struct-2496" status="OLD"><orgName>INRIA Lorraine</orgName><desc><address><addrLine>615 rue du Jardin Botanique 54600 Villers-lès-Nancy</addrLine><country key="FR"></country></address><ref type="url">http://www.inria.fr/centre-de-recherche-inria/nancy-grand-est</ref></desc><listRelation><relation active="#struct-300009" type="direct"></relation></listRelation></org></tutelle></tutelles></hal:affiliation><country>France</country><placeName><settlement type="city">Nancy</settlement><region type="region" nuts="2">Grand Est</region><region type="old region" nuts="2">Lorraine (région)</region></placeName><orgName type="university">Université Nancy 2</orgName><orgName type="institution" wicri:auto="newGroup">Université de Lorraine</orgName><placeName><settlement type="city">Nancy</settlement><region type="region" nuts="2">Grand Est</region><region type="old region" nuts="2">Lorraine (région)</region></placeName><orgName type="university">Institut national polytechnique de Lorraine</orgName><orgName type="institution" wicri:auto="newGroup">Université de Lorraine</orgName></affiliation></author><author><name sortKey="Smail Tabbone, Malika" sort="Smail Tabbone, Malika" uniqKey="Smail Tabbone M" first="Malika" last="Smaïl-Tabbone">Malika Smaïl-Tabbone</name><affiliation wicri:level="1"><hal:affiliation type="researchteam" xml:id="struct-2358" status="OLD"><idno type="RNSR">200818291B</idno><orgName>Knowledge representation, reasonning</orgName><orgName type="acronym">ORPAILLEUR</orgName><desc><address><country key="FR"></country></address><ref type="url">http://www.inria.fr/equipes/orpailleur</ref></desc><listRelation><relation active="#struct-160" type="direct"></relation><relation name="UMR7503" active="#struct-441569" type="indirect"></relation><relation active="#struct-300009" type="indirect"></relation><relation active="#struct-300291" type="indirect"></relation><relation active="#struct-300292" type="indirect"></relation><relation active="#struct-300293" type="indirect"></relation><relation active="#struct-2496" type="direct"></relation></listRelation><tutelles><tutelle active="#struct-160" type="direct"><org type="laboratory" xml:id="struct-160" status="OLD"><orgName>Laboratoire Lorrain de Recherche en Informatique et ses Applications</orgName><orgName type="acronym">LORIA</orgName><desc><address><addrLine>Campus Scientifique BP 239 54506 Vandoeuvre-lès-Nancy Cedex</addrLine><country key="FR"></country></address><ref type="url">http://www.loria.fr</ref></desc><listRelation><relation name="UMR7503" active="#struct-441569" type="direct"></relation><relation active="#struct-300009" type="direct"></relation><relation active="#struct-300291" type="direct"></relation><relation active="#struct-300292" type="direct"></relation><relation active="#struct-300293" type="direct"></relation></listRelation></org></tutelle><tutelle name="UMR7503" active="#struct-441569" type="indirect"><org type="institution" xml:id="struct-441569" status="VALID"><idno type="ISNI">0000000122597504</idno><idno type="IdRef">02636817X</idno><orgName>Centre National de la Recherche Scientifique</orgName><orgName type="acronym">CNRS</orgName><date type="start">1939-10-19</date><desc><address><country key="FR"></country></address><ref type="url">http://www.cnrs.fr/</ref></desc></org></tutelle><tutelle active="#struct-300009" type="indirect"><org type="institution" xml:id="struct-300009" status="VALID"><orgName>Institut National de Recherche en Informatique et en Automatique</orgName><orgName type="acronym">Inria</orgName><desc><address><addrLine>Domaine de VoluceauRocquencourt - BP 10578153 Le Chesnay Cedex</addrLine><country key="FR"></country></address><ref type="url">http://www.inria.fr/en/</ref></desc></org></tutelle><tutelle active="#struct-300291" type="indirect"><org type="institution" xml:id="struct-300291" status="OLD"><orgName>Université Henri Poincaré - Nancy 1</orgName><orgName type="acronym">UHP</orgName><date type="end">2011-12-31</date><desc><address><addrLine>24-30 rue Lionnois, BP 60120, 54 003 NANCY cedex, France</addrLine><country key="FR"></country></address></desc></org></tutelle><tutelle active="#struct-300292" type="indirect"><org type="institution" xml:id="struct-300292" status="OLD"><orgName>Université Nancy 2</orgName><date type="end">2011-12-31</date><desc><address><addrLine>91 avenue de la Libération, BP 454, 54001 Nancy cedex</addrLine><country key="FR"></country></address></desc></org></tutelle><tutelle active="#struct-300293" type="indirect"><org type="institution" xml:id="struct-300293" status="OLD"><orgName>Institut National Polytechnique de Lorraine</orgName><orgName type="acronym">INPL</orgName><date type="end">2011-12-31</date><desc><address><country key="FR"></country></address></desc></org></tutelle><tutelle active="#struct-2496" type="direct"><org type="laboratory" xml:id="struct-2496" status="OLD"><orgName>INRIA Lorraine</orgName><desc><address><addrLine>615 rue du Jardin Botanique 54600 Villers-lès-Nancy</addrLine><country key="FR"></country></address><ref type="url">http://www.inria.fr/centre-de-recherche-inria/nancy-grand-est</ref></desc><listRelation><relation active="#struct-300009" type="direct"></relation></listRelation></org></tutelle></tutelles></hal:affiliation><country>France</country><placeName><settlement type="city">Nancy</settlement><region type="region" nuts="2">Grand Est</region><region type="old region" nuts="2">Lorraine (région)</region></placeName><orgName type="university">Université Nancy 2</orgName><orgName type="institution" wicri:auto="newGroup">Université de Lorraine</orgName><placeName><settlement type="city">Nancy</settlement><region type="region" nuts="2">Grand Est</region><region type="old region" nuts="2">Lorraine (région)</region></placeName><orgName type="university">Institut national polytechnique de Lorraine</orgName><orgName type="institution" wicri:auto="newGroup">Université de Lorraine</orgName></affiliation></author></analytic><idno type="DOI">10.1504/IJMSO.2010.034043</idno></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="mix" xml:lang="en"><term>FCA</term><term>bioinformatics</term><term>biological data sources</term><term>biological databases</term><term>biomedical thesaurus</term><term>classification</term><term>formal concept analysis</term><term>information retrieval</term><term>metadata extraction</term><term>resource discovery</term><term>semantic similarity</term><term>semantics</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">The need for a well-maintained searchable directory is an important issue with regard to the numerous biological databases produced by genomic and post-genomic research. The BioRegistry repository aims to associate content metadata belonging to a biomedical thesaurus with biological databases in view of retrieval or discovery. It is automatically generated from a publicly available list of biological databases. The querying modalities include a search by semantic similarity. The system performance is evaluated in terms of precision and recall on a collection test. A classification method is proposed for browsing and discovering databases through the BioRegistry.</div></front></TEI><affiliations><list><country><li>France</li></country><region><li>Grand Est</li><li>Lorraine (région)</li></region><settlement><li>Nancy</li></settlement><orgName><li>Institut national polytechnique de Lorraine</li><li>Université Nancy 2</li><li>Université de Lorraine</li></orgName></list><tree><noCountry><name sortKey="Bresso, Emmanuel" sort="Bresso, Emmanuel" uniqKey="Bresso E" first="Emmanuel" last="Bresso">Emmanuel Bresso</name><name sortKey="Franiatte, Philippe" sort="Franiatte, Philippe" uniqKey="Franiatte P" first="Philippe" last="Franiatte">Philippe Franiatte</name><name sortKey="Messai, Nizar" sort="Messai, Nizar" uniqKey="Messai N" first="Nizar" last="Messai">Nizar Messai</name></noCountry><country name="France"><region name="Grand Est"><name sortKey="Devignes, Marie Dominique" sort="Devignes, Marie Dominique" uniqKey="Devignes M" first="Marie-Dominique" last="Devignes">Marie-Dominique Devignes</name></region><name sortKey="Napoli, Amedeo" sort="Napoli, Amedeo" uniqKey="Napoli A" first="Amedeo" last="Napoli">Amedeo Napoli</name><name sortKey="Smail Tabbone, Malika" sort="Smail Tabbone, Malika" uniqKey="Smail Tabbone M" first="Malika" last="Smaïl-Tabbone">Malika Smaïl-Tabbone</name></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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