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</o:shapelayout></xml><![endif]--></head><body lang=FR link="#0563C1" vlink="#954F72"><div class=WordSection1><p style='margin:0cm;margin-bottom:.0001pt'><span lang=EN-US style='font-size:11.0pt;font-family:"Calibri",sans-serif;color:black'>We are pleased to publicly announce the first release of the AgroPortal: </span><a href="http://agroportal.lirmm.fr/"><span lang=EN-US style='font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1155CC'>http://agroportal.lirmm.fr/</span></a><span lang=EN-US><o:p></o:p></span></p><p class=MsoNormal><span lang=EN-US>This is still a beta, but this is 1.0! <o:p></o:p></span></p><p class=MsoNormal><span lang=EN-US><o:p> </o:p></span></p><p style='margin:0cm;margin-bottom:.0001pt'><b><span lang=EN-US style='font-size:11.0pt;font-family:"Calibri",sans-serif;color:black'>AgroPortal is an ontology repository dedicated to the agronomic and plant domains</span></b><span lang=EN-US style='font-size:11.0pt;font-family:"Calibri",sans-serif;color:black'>. The platform reuses the NCBO BioPortal infrastructure and customizes it. As of today, it includes 38 ontologies which come mainly from external users, NCBO BioPortal, or driving agronomic use-cases including :</span><span lang=EN-US><o:p></o:p></span></p><p style='mso-margin-top-alt:0cm;margin-right:0cm;margin-bottom:0cm;margin-left:36.0pt;margin-bottom:.0001pt;text-indent:-18.0pt;mso-list:l0 level1 lfo1;vertical-align:baseline'><![if !supportLists]><span lang=EN-US style='font-size:10.0pt;font-family:Symbol;color:black'><span style='mso-list:Ignore'>·<span style='font:7.0pt "Times New Roman"'> </span></span></span><![endif]><b><span lang=EN-US style='font-size:11.0pt;font-family:"Calibri",sans-serif;color:black'>IBC Rice Genomics & </span></b><span style='font-size:11.0pt;font-family:"Calibri",sans-serif;color:black'><a href="http://agrold.org"><b><span lang=EN-US style='color:#1155CC'>AgroLD project</span></b></a></span><b><span lang=EN-US style='font-size:11.0pt;font-family:"Calibri",sans-serif;color:black'>:</span></b><span lang=EN-US style='font-size:11.0pt;font-family:"Calibri",sans-serif;color:black'> rice data integration & linked RDF data from a variety of plant resources and ontologies (contact: P. Larmande)<o:p></o:p></span></p><p style='mso-margin-top-alt:0cm;margin-right:0cm;margin-bottom:0cm;margin-left:36.0pt;margin-bottom:.0001pt;text-indent:-18.0pt;mso-list:l0 level1 lfo1;vertical-align:baseline'><![if !supportLists]><span lang=EN-US style='font-size:10.0pt;font-family:Symbol;color:black'><span style='mso-list:Ignore'>·<span style='font:7.0pt "Times New Roman"'> </span></span></span><![endif]><span style='font-size:11.0pt;font-family:"Calibri",sans-serif;color:black'><a href="https://rd-alliance.org/groups/wheat-data-interoperability-wg.html"><b><span lang=EN-US style='color:#1155CC'>RDA Wheat Data Interoperability working group</span></b></a></span><span lang=EN-US style='font-size:11.0pt;font-family:"Calibri",sans-serif;color:black'>: a common framework for describing, representing, linking and publishing wheat data with respect to open standards (contact: E. Dzalé-Yeumo)<o:p></o:p></span></p><p style='mso-margin-top-alt:0cm;margin-right:0cm;margin-bottom:0cm;margin-left:36.0pt;margin-bottom:.0001pt;text-indent:-18.0pt;mso-list:l0 level1 lfo1;vertical-align:baseline'><![if !supportLists]><span lang=EN-US style='font-size:10.0pt;font-family:Symbol;color:black'><span style='mso-list:Ignore'>·<span style='font:7.0pt "Times New Roman"'> </span></span></span><![endif]><span style='font-size:11.0pt;font-family:"Calibri",sans-serif;color:black'><a href="http://lovinra.inra.fr/"><b><span lang=EN-US style='color:#1155CC'>INRA Linked Open Vocabularies</span></b></a></span><span lang=EN-US style='font-size:11.0pt;font-family:"Calibri",sans-serif;color:black'>: vocabularies produced or co-produced by INRA scientists (contacts: E. Dzalé-Yeumo & P. Buche)<o:p></o:p></span></p><p style='mso-margin-top-alt:0cm;margin-right:0cm;margin-bottom:0cm;margin-left:36.0pt;margin-bottom:.0001pt;text-indent:-18.0pt;mso-list:l0 level1 lfo1;vertical-align:baseline'><![if !supportLists]><span style='font-size:10.0pt;font-family:Symbol;color:black'><span style='mso-list:Ignore'>·<span style='font:7.0pt "Times New Roman"'> </span></span></span><![endif]><span style='font-size:11.0pt;font-family:"Calibri",sans-serif;color:black'><a href="http://www.cropontology.org"><b><span lang=EN-US style='color:#1155CC'>The Crop Ontology project</span></b></a></span><span lang=EN-US style='font-size:11.0pt;font-family:"Calibri",sans-serif;color:black'>: a set of ontologies developed to compile validated concepts/relations on anatomy, structure and phenotype of Crops. </span><span style='font-size:11.0pt;font-family:"Calibri",sans-serif;color:black'>(contacts: E. Arnaud & M-A. Laporte)<o:p></o:p></span></p><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Times New Roman",serif'><o:p> </o:p></span></p><p style='margin:0cm;margin-bottom:.0001pt'><span lang=EN-US style='font-size:11.0pt;font-family:"Calibri",sans-serif;color:black'>As the original BioPortal the platform enables to:</span><span lang=EN-US><o:p></o:p></span></p><p style='mso-margin-top-alt:0cm;margin-right:0cm;margin-bottom:0cm;margin-left:36.0pt;margin-bottom:.0001pt;text-indent:-18.0pt;mso-list:l1 level1 lfo2;vertical-align:baseline'><![if !supportLists]><span style='font-size:10.0pt;font-family:Symbol;color:black'><span style='mso-list:Ignore'>·<span style='font:7.0pt "Times New Roman"'> </span></span></span><![endif]><span style='font-size:11.0pt;font-family:"Calibri",sans-serif;color:black'>Store ontology metadata<o:p></o:p></span></p><p style='mso-margin-top-alt:0cm;margin-right:0cm;margin-bottom:0cm;margin-left:36.0pt;margin-bottom:.0001pt;text-indent:-18.0pt;mso-list:l1 level1 lfo2;vertical-align:baseline'><![if !supportLists]><span style='font-size:10.0pt;font-family:Symbol;color:black'><span style='mso-list:Ignore'>·<span style='font:7.0pt "Times New Roman"'> </span></span></span><![endif]><span style='font-size:11.0pt;font-family:"Calibri",sans-serif;color:black'>Search within ontologies<o:p></o:p></span></p><p style='mso-margin-top-alt:0cm;margin-right:0cm;margin-bottom:0cm;margin-left:36.0pt;margin-bottom:.0001pt;text-indent:-18.0pt;mso-list:l1 level1 lfo2;vertical-align:baseline'><![if !supportLists]><span lang=EN-US style='font-size:10.0pt;font-family:Symbol;color:black'><span style='mso-list:Ignore'>·<span style='font:7.0pt "Times New Roman"'> </span></span></span><![endif]><span lang=EN-US style='font-size:11.0pt;font-family:"Calibri",sans-serif;color:black'>Store and retrieve mappings between ontologies<o:p></o:p></span></p><p style='mso-margin-top-alt:0cm;margin-right:0cm;margin-bottom:0cm;margin-left:36.0pt;margin-bottom:.0001pt;text-indent:-18.0pt;mso-list:l1 level1 lfo2;vertical-align:baseline'><![if !supportLists]><span style='font-size:10.0pt;font-family:Symbol;color:black'><span style='mso-list:Ignore'>·<span style='font:7.0pt "Times New Roman"'> </span></span></span><![endif]><span style='font-size:11.0pt;font-family:"Calibri",sans-serif;color:black'>Visualize ontology content<o:p></o:p></span></p><p style='mso-margin-top-alt:0cm;margin-right:0cm;margin-bottom:0cm;margin-left:36.0pt;margin-bottom:.0001pt;text-indent:-18.0pt;mso-list:l1 level1 lfo2;vertical-align:baseline'><![if !supportLists]><span lang=EN-US style='font-size:10.0pt;font-family:Symbol;color:black'><span style='mso-list:Ignore'>·<span style='font:7.0pt "Times New Roman"'> </span></span></span><![endif]><span lang=EN-US style='font-size:11.0pt;font-family:"Calibri",sans-serif;color:black'>Comment about ontologies, concepts and mappings<o:p></o:p></span></p><p style='mso-margin-top-alt:0cm;margin-right:0cm;margin-bottom:0cm;margin-left:36.0pt;margin-bottom:.0001pt;text-indent:-18.0pt;mso-list:l1 level1 lfo2;vertical-align:baseline'><![if !supportLists]><span lang=EN-US style='font-size:10.0pt;font-family:Symbol;color:black'><span style='mso-list:Ignore'>·<span style='font:7.0pt "Times New Roman"'> </span></span></span><![endif]><span lang=EN-US style='font-size:11.0pt;font-family:"Calibri",sans-serif;color:black'>Annotate text data with ontology concepts<o:p></o:p></span></p><p style='mso-margin-top-alt:0cm;margin-right:0cm;margin-bottom:0cm;margin-left:36.0pt;margin-bottom:.0001pt;text-indent:-18.0pt;mso-list:l1 level1 lfo2;vertical-align:baseline'><![if !supportLists]><span lang=EN-US style='font-size:10.0pt;font-family:Symbol;color:black'><span style='mso-list:Ignore'>·<span style='font:7.0pt "Times New Roman"'> </span></span></span><![endif]><span lang=EN-US style='font-size:11.0pt;font-family:"Calibri",sans-serif;color:black'>Get a recommendation about which ontology use for a text corpus or set of keywords<o:p></o:p></span></p><p style='mso-margin-top-alt:0cm;margin-right:0cm;margin-bottom:0cm;margin-left:36.0pt;margin-bottom:.0001pt;text-indent:-18.0pt;mso-list:l1 level1 lfo2;vertical-align:baseline'><![if !supportLists]><span style='font-size:10.0pt;font-family:Symbol;color:black'><span style='mso-list:Ignore'>·<span style='font:7.0pt "Times New Roman"'> </span></span></span><![endif]><span style='font-size:11.0pt;font-family:"Calibri",sans-serif;color:black'>Store projects which use ontologies<o:p></o:p></span></p><p style='mso-margin-top-alt:0cm;margin-right:0cm;margin-bottom:0cm;margin-left:36.0pt;margin-bottom:.0001pt;text-indent:-18.0pt;mso-list:l1 level1 lfo2;vertical-align:baseline'><![if !supportLists]><span style='font-size:10.0pt;font-family:Symbol;color:black'><span style='mso-list:Ignore'>·<span style='font:7.0pt "Times New Roman"'> </span></span></span><![endif]><span style='font-size:11.0pt;font-family:"Calibri",sans-serif;color:black'>And many other features!!<o:p></o:p></span></p><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Times New Roman",serif'><o:p> </o:p></span></p><p style='margin:0cm;margin-bottom:.0001pt'><span lang=EN-US style='font-size:11.0pt;font-family:"Calibri",sans-serif;color:black'>We are currently working on new features, that will be announced regularly.</span><span lang=EN-US><o:p></o:p></span></p><p class=MsoNormal><span lang=EN-US><o:p> </o:p></span></p><p style='margin:0cm;margin-bottom:.0001pt'><span lang=EN-US style='font-size:11.0pt;font-family:"Calibri",sans-serif;color:black'>The content of the platform is accessible via REST API and SPARQL endpoint:</span><span lang=EN-US><o:p></o:p></span></p><p style='margin:0cm;margin-bottom:.0001pt'><a href="http://data.agroportal.lirmm.fr/documentation"><span lang=EN-US style='font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1155CC'>http://data.agroportal.lirmm.fr/documentation</span></a><span style='font-size:11.0pt;font-family:"Calibri",sans-serif;color:black'> </span><span lang=EN-US><o:p></o:p></span></p><p style='margin:0cm;margin-bottom:.0001pt'><a href="http://sparql.agroportal.lirmm.fr/test/"><span lang=EN-US style='font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1155CC'>http://sparql.agroportal.lirmm.fr/test/</span></a><span lang=EN-US><o:p></o:p></span></p><p class=MsoNormal><span lang=EN-US><o:p> </o:p></span></p><p style='margin:0cm;margin-bottom:.0001pt'><span lang=EN-US style='font-size:11.0pt;font-family:"Calibri",sans-serif;color:black'>The main objective of the AgroPortal project is to enable straightforward use of agronomic related ontologies, avoiding data managers and researchers the burden to deal with complex knowledge engineering issues. We want to offer a “one-stop-shop” for ontologies that will arise awareness, avoid duplicated efforts, and foster adoption of common practices. The AgroPortal project will specifically pay attention to <b>respect the requirements of the agronomic/plant community</b>. So your feedbacks are welcome! </span><span lang=EN-US><o:p></o:p></span></p><p class=MsoNormal><span lang=EN-US><o:p> </o:p></span></p><p style='margin:0cm;margin-bottom:.0001pt'><span lang=EN-US style='font-size:11.0pt;font-family:"Calibri",sans-serif;color:black'>AgroPortal is the result of a <b>collaboration between</b>: LIRMM, INRA, IRD, Bioversity International, CIRAD and of course the National Center for Biomedical Ontologies (NCBO) @ Stanford Univ.</span><span lang=EN-US><o:p></o:p></span></p><p style='margin:0cm;margin-bottom:.0001pt'><span lang=EN-US style='font-size:11.0pt;font-family:"Calibri",sans-serif;color:black'>The project acknowledge the <b>support of</b>: French ANR, Univ. of Montpellier, CNRS, IBC of Montpellier, NUMEV.</span><span lang=EN-US><o:p></o:p></span></p><p class=MsoNormal><span lang=EN-US><o:p> </o:p></span></p><p style='margin:0cm;margin-bottom:.0001pt'><span lang=EN-US style='font-size:11.0pt;font-family:"Calibri",sans-serif;color:black'>Please, refer to the project with: </span><span lang=EN-US><o:p></o:p></span></p><p style='margin:0cm;margin-bottom:.0001pt'><span style='font-size:11.0pt;font-family:"Calibri",sans-serif;color:black'>Clement Jonquet, Esther Dzalé-Yeumo, Elizabeth Arnaud & Pierre Larmande. <b>AgroPortal : a proposition for ontology-based services in the agronomic domain</b>, In <i>3ème atelier INtégration de sources/masses de données hétérogènes et Ontologies, dans le domaine des sciences du VIVant et de l’Environnement, IN-OVIVE'15</i>. </span><span lang=EN-US style='font-size:11.0pt;font-family:"Calibri",sans-serif;color:black'>Rennes, France, June 2015. pp. 5. [</span><a href="http://www.lirmm.fr/~jonquet/publications/documents/Article_InOvive2015_AgroPortal.pdf"><span lang=EN-US style='font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1155CC'>PDF</span></a><span lang=EN-US style='font-size:11.0pt;font-family:"Calibri",sans-serif;color:black'>] </span><span lang=EN-US><o:p></o:p></span></p><p class=MsoNormal><span lang=EN-US><o:p> </o:p></span></p><p style='margin:0cm;margin-bottom:.0001pt'><span lang=EN-US style='font-size:11.0pt;font-family:"Calibri",sans-serif;color:black'>Please try out or contact us at </span><a href="mailto:agroportal-support@lirmm.fr"><span lang=EN-US style='font-size:11.0pt;font-family:"Calibri",sans-serif;color:#1155CC'>agroportal-support@lirmm.fr</span></a><span style='font-size:11.0pt;font-family:"Calibri",sans-serif;color:black'> </span><span lang=EN-US><o:p></o:p></span></p><p class=MsoNormal><span lang=EN-US><br></span><span lang=EN-US style='color:black'>Information: AgroPortal was presented at the PAG meeting in San Diego </span><a href="https://pag.confex.com/pag/xxiv/meetingapp.cgi/Paper/19550"><span lang=EN-US style='color:#1155CC'>January 9th </span></a><span lang=EN-US style='color:black'>and </span><a href="https://pag.confex.com/pag/xxiv/meetingapp.cgi/Paper/21605"><span lang=EN-US style='color:#1155CC'>11th (poster)</span></a><span lang=EN-US style='color:black'>.<o:p></o:p></span></p><p class=MsoNormal><span lang=EN-US style='color:black'><o:p> </o:p></span></p><p class=MsoNormal><span lang=EN-US style='color:black'>The AgroPortal team.<o:p></o:p></span></p><p class=MsoNormal><span lang=EN-US style='color:black'><o:p> </o:p></span></p><p class=MsoNormal><span lang=EN-US style='mso-fareast-language:FR'>---------------------------------------------------------------------------------------------------------------------------<o:p></o:p></span></p><p class=MsoNormal><span lang=EN-US style='mso-fareast-language:FR'>Dr. <b>Clement JONQUET</b> - <i>PhD in Informatics - Assistant Professor<o:p></o:p></i></span></p><p class=MsoNormal><i><span lang=EN-US style='mso-fareast-language:FR'>Coordinator of the <a href="http://www.lirmm.fr/sifr/"><span style='color:blue'>SIFR</span></a> and <a href="http://agroportal.lirmm.fr/"><span style='color:blue'>AgroPortal</span></a> projects<o:p></o:p></span></i></p><p class=MsoNormal><i><span lang=EN-US style='mso-fareast-language:FR'>Visiting faculty, Stanford University<o:p></o:p></span></i></p><p class=MsoNormal><span lang=EN-US style='mso-fareast-language:FR'><o:p> </o:p></span></p><p class=MsoNormal><span lang=EN-US style='mso-fareast-language:FR'><a href="mailto:jonquet@lirmm.fr"><span style='color:blue'>jonquet@lirmm.fr</span></a><o:p></o:p></span></p><p class=MsoNormal><span lang=EN-US style='mso-fareast-language:FR'><a href="http://www.lirmm.fr/~jonquet"><span style='color:blue'>http://www.lirmm.fr/~jonquet</span></a> <o:p></o:p></span></p><p class=MsoNormal><span lang=EN-US style='mso-fareast-language:FR'><o:p> </o:p></span></p><p class=MsoNormal><span lang=EN-US style='mso-fareast-language:FR'> <b>University of Montpellier</b> Tel: +33/4 67 14 97 43<b><o:p></o:p></b></span></p><p class=MsoNormal><span lang=EN-US style='mso-fareast-language:FR'> LIRMM Fax: +33/4 67 41 85 00 <o:p></o:p></span></p><p class=MsoNormal><span lang=EN-US style='mso-fareast-language:FR'> 161 rue Ada Skype: clementpro<br> 34095 Montpellier Cdx 5 Twitter: <a href="http://twitter.com/jonquet_lirmm"><span style='color:blue'>@jonquet_lirmm</span></a><o:p></o:p></span></p><p class=MsoNormal><span lang=EN-US style='mso-fareast-language:FR'> France Google: <a href="mailto:jonquet.lirmm@gmail.com"><span style='color:blue'>jonquet.lirmm@gmail.com</span></a><o:p></o:p></span></p><p class=MsoNormal><span lang=EN-US style='mso-fareast-language:FR'>----------------------------------------------------------------------------------------------------------------------<o:p></o:p></span></p><p class=MsoNormal><!--[if gte vml 1]><v:shapetype id="_x0000_t75" coordsize="21600,21600" o:spt="75" o:preferrelative="t" path="m@4@5l@4@11@9@11@9@5xe" filled="f" stroked="f">
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