<html xmlns:v="urn:schemas-microsoft-com:vml" xmlns:o="urn:schemas-microsoft-com:office:office" xmlns:w="urn:schemas-microsoft-com:office:word" xmlns:x="urn:schemas-microsoft-com:office:excel" xmlns:m="http://schemas.microsoft.com/office/2004/12/omml" xmlns="http://www.w3.org/TR/REC-html40"><head><meta http-equiv=Content-Type content="text/html; charset=iso-8859-1"><meta name=Generator content="Microsoft Word 15 (filtered medium)"><!--[if !mso]><style>v\:* {behavior:url(#default#VML);}
o\:* {behavior:url(#default#VML);}
w\:* {behavior:url(#default#VML);}
.shape {behavior:url(#default#VML);}
</style><![endif]--><style><!--
/* Font Definitions */
@font-face
{font-family:"Cambria Math";
panose-1:2 4 5 3 5 4 6 3 2 4;}
@font-face
{font-family:Calibri;
panose-1:2 15 5 2 2 2 4 3 2 4;}
/* Style Definitions */
p.MsoNormal, li.MsoNormal, div.MsoNormal
{margin:0cm;
margin-bottom:.0001pt;
font-size:11.0pt;
font-family:"Calibri","sans-serif";
mso-fareast-language:EN-US;}
h1
{mso-style-name:"Titre 1\,Titre 1-prop";
mso-style-priority:9;
mso-style-link:"Titre 1 Car\,Titre 1-prop Car1";
margin-top:18.0pt;
margin-right:0cm;
margin-bottom:6.0pt;
margin-left:21.55pt;
text-align:justify;
text-indent:-21.55pt;
page-break-after:avoid;
font-size:11.0pt;
font-family:"Arial","sans-serif";
mso-fareast-language:AR-SA;
font-weight:normal;}
a:link, span.MsoHyperlink
{mso-style-priority:99;
color:#0563C1;
text-decoration:underline;}
a:visited, span.MsoHyperlinkFollowed
{mso-style-priority:99;
color:#954F72;
text-decoration:underline;}
span.EmailStyle17
{mso-style-type:personal-compose;
font-family:"Calibri","sans-serif";
color:windowtext;}
span.Titre1Car
{mso-style-name:"Titre 1 Car\,Titre 1-prop Car1";
mso-style-priority:9;
mso-style-link:"Titre 1\,Titre 1-prop";
font-family:"Arial","sans-serif";
mso-fareast-language:AR-SA;}
p.Normal-encadr, li.Normal-encadr, div.Normal-encadr
{mso-style-name:Normal-encadré;
margin-top:6.0pt;
margin-right:0cm;
margin-bottom:6.0pt;
margin-left:0cm;
text-align:justify;
text-indent:0cm;
mso-list:l0 level1 lfo1;
font-size:10.0pt;
font-family:"Arial","sans-serif";
mso-fareast-language:AR-SA;}
.MsoChpDefault
{mso-style-type:export-only;
font-family:"Calibri","sans-serif";
mso-fareast-language:EN-US;}
@page WordSection1
{size:612.0pt 792.0pt;
margin:70.85pt 70.85pt 70.85pt 70.85pt;}
div.WordSection1
{page:WordSection1;}
/* List Definitions */
@list l0
{mso-list-id:1;
mso-list-template-ids:1351542740;}
@list l0:level1
{mso-level-number-format:none;
mso-level-style-link:Normal-encadré;
mso-level-suffix:none;
mso-level-text:"";
mso-level-tab-stop:21.6pt;
mso-level-number-position:left;
margin-left:21.6pt;
text-indent:-21.6pt;
mso-ansi-language:EN-US;}
@list l0:level2
{mso-level-number-format:none;
mso-level-suffix:none;
mso-level-text:"";
mso-level-tab-stop:28.8pt;
mso-level-number-position:left;
margin-left:28.8pt;
text-indent:-28.8pt;}
@list l0:level3
{mso-level-number-format:none;
mso-level-suffix:none;
mso-level-text:"";
mso-level-tab-stop:36.0pt;
mso-level-number-position:left;
margin-left:36.0pt;
text-indent:-36.0pt;}
@list l0:level4
{mso-level-number-format:none;
mso-level-suffix:none;
mso-level-text:"";
mso-level-tab-stop:43.2pt;
mso-level-number-position:left;
margin-left:43.2pt;
text-indent:-43.2pt;}
@list l0:level5
{mso-level-number-format:none;
mso-level-suffix:none;
mso-level-text:"";
mso-level-tab-stop:50.4pt;
mso-level-number-position:left;
margin-left:50.4pt;
text-indent:-50.4pt;}
@list l0:level6
{mso-level-number-format:none;
mso-level-suffix:none;
mso-level-text:"";
mso-level-tab-stop:57.6pt;
mso-level-number-position:left;
margin-left:57.6pt;
text-indent:-57.6pt;}
@list l0:level7
{mso-level-number-format:none;
mso-level-suffix:none;
mso-level-text:"";
mso-level-tab-stop:64.8pt;
mso-level-number-position:left;
margin-left:64.8pt;
text-indent:-64.8pt;}
@list l0:level8
{mso-level-number-format:none;
mso-level-suffix:none;
mso-level-text:"";
mso-level-tab-stop:72.0pt;
mso-level-number-position:left;
margin-left:72.0pt;
text-indent:-72.0pt;}
@list l0:level9
{mso-level-number-format:none;
mso-level-suffix:none;
mso-level-text:"";
mso-level-tab-stop:79.2pt;
mso-level-number-position:left;
margin-left:79.2pt;
text-indent:-79.2pt;}
ol
{margin-bottom:0cm;}
ul
{margin-bottom:0cm;}
--></style><!--[if gte mso 9]><xml>
<o:shapedefaults v:ext="edit" spidmax="1027" />
</xml><![endif]--><!--[if gte mso 9]><xml>
<o:shapelayout v:ext="edit">
<o:idmap v:ext="edit" data="1" />
</o:shapelayout></xml><![endif]--></head><body lang=FR link="#0563C1" vlink="#954F72"><div class=WordSection1><p class=MsoNormal><span lang=EN-US>Bonjour, Hello, <o:p></o:p></span></p><p class=MsoNormal><span lang=EN-US><o:p> </o:p></span></p><p class=MsoNormal><span lang=EN-US>The LIRMM (University of Montpellier & CNRS) and CISMeF (LITIS, & Rouen School of Medicine) are currently offering 1 fully-funded PhD studentships commencing fall 2013 for 3 years.<o:p></o:p></span></p><p class=MsoNormal><span lang=EN-US>Applications are invited from France, EU and international students on the following PhD project. <o:p></o:p></span></p><p class=MsoNormal><span lang=EN-US><o:p> </o:p></span></p><p class=MsoNormal><span lang=EN-US>Sorry for multiple receptions. Thank you for <b>transferring to your local students mailing lists</b>.<o:p></o:p></span></p><p class=MsoNormal><b><span lang=EN-US>------------------------------------------------------------------------------------------------------------------</span></b><o:p></o:p></p><h1 style='mso-list:l0 level1 lfo1'><b>Title:<o:p></o:p></b></h1><p class=Normal-encadr style='margin-left:0cm;text-indent:0cm;mso-list:l0 level1 lfo1'><b><span lang=EN-US>Semantic portals interoperability and multilingual data integration in biomedicine</span></b><span lang=EN-US>.<o:p></o:p></span></p><h1 style='mso-list:l0 level1 lfo1'><b>Information:<o:p></o:p></b></h1><p class=Normal-encadr align=left style='margin-left:0cm;text-align:left;text-indent:0cm;mso-list:l0 level1 lfo1'><span lang=EN-US>Institution<b>:</b> </span><a href="http://www.univ-montp2.fr"><span lang=EN-US>University of Montpellier</span></a><span lang=EN-US>, </span><a href="http://www.edi2s.univ-montp2.fr"><span lang=EN-US>I2S doctoral school</span></a><u><span lang=EN-US style='color:blue'><br></span></u><span lang=EN-US> <a href="http://www.univ-rouen.fr/">University of Rouen</a>, </span><a href="http://www.univ-rouen.fr/DOSPM/0/fiche_SGR__structure/"><span lang=EN-US>SPMII doctoral school</span></a><span lang=EN-US><o:p></o:p></span></p><p class=Normal-encadr align=left style='margin-left:36.0pt;text-align:left;text-indent:-36.0pt;mso-list:l0 level3 lfo1'>Supervisors: Clement Jonquet (LIRMM, UM2) – <a href="mailto:jonquet@lirmm.fr">jonquet@lirmm.fr</a><br> Lina Soualmia (LITIS, CHU de Rouen) – <a href="mailto:lina.soualmia@chu-rouen.fr">lina.soualmia@chu-rouen.fr</a><br> Stefan J. Darmoni (LITIS, CHU de Rouen) – <a href="mailto:stefan.darmoni@chu-rouen.fr">stefan.darmoni@chu-rouen.fr</a><o:p></o:p></p><p class=Normal-encadr style='margin-left:0cm;text-indent:0cm;mso-list:l0 level1 lfo1'><span lang=EN-US>Project: <a href="http://www.lirmm.fr/sifr/">SIFR project</a> (Semantic Indexing of French Biomedical Data Resources)<o:p></o:p></span></p><p class=Normal-encadr style='margin-left:0cm;text-indent:0cm;mso-list:l0 level1 lfo1'><span lang=EN-US>When: Fall 2013 for 3 years<o:p></o:p></span></p><p class=Normal-encadr align=left style='margin-left:0cm;text-align:left;text-indent:0cm;mso-list:l0 level1 lfo1'><span lang=EN-US>Where: </span><a href="http://www.lirmm.fr/"><span lang=EN-US>Laboratory of Informatics, Robotics, and Microelectronics of Montpellier (LIRMM)</span></a><a name="_Toc311207430"><span lang=EN-US> <br> (2 first years)<br> </span></a><span lang=EN-US> </span><a href="http://www.cismef.org"><span lang=EN-US>Catalogue et Index des Sites Médicaux de langue Française (CISMeF)</span></a><span lang=EN-US><br> (last year)<o:p></o:p></span></p><p class=Normal-encadr align=left style='margin-left:0cm;text-align:left;text-indent:0cm;mso-list:l0 level1 lfo1'><span lang=EN-US>Collaborations<b>: </b></span><a href="http://bmir.stanford.edu/"><span lang=EN-US>Stanford Center for Biomedical Informatics Research (BMIR)</span></a><span lang=EN-US>,<br> Stanford University (Pr. Mark Musen).<o:p></o:p></span></p><h1 style='mso-list:l0 level1 lfo1'><b><span lang=EN-US>Key-words:<o:p></o:p></span></b></h1><p class=Normal-encadr style='margin-left:0cm;text-indent:0cm;mso-list:l0 level1 lfo1'><span lang=EN-US>(biomedical)ontologies & terminologies, semantic web, multilingualism, knowledge representation, biomedical data integration, semantic interoperability, ontology alignment, linked data<o:p></o:p></span></p><h1 style='mso-list:l0 level1 lfo1'><b>Context:<o:p></o:p></b></h1><p class=Normal-encadr style='margin-left:0cm;text-indent:0cm;mso-list:l0 level1 lfo1'><span lang=EN-US>The volume of data in biomedicine is constantly increasing. Despite a large adoption of English in science, a significant quantity of these data uses the French language. The community has turned toward<b> terminologies and ontologies to design semantic indexes of data</b> that leverage the medical knowledge for better information mining and retrieval. However, besides the existence of various English tools, there are considerably less ontologies available in French and there is a strong lack of related tools and services to exploit them. This lack does not match the huge amount of biomedical data produced in French, especially in the clinical world (e.g., electronic health records).<o:p></o:p></span></p><p class=Normal-encadr style='margin-left:0cm;text-indent:0cm;mso-list:l0 level1 lfo1'><span lang=EN-US>Within the SIFR project, we will investigate the <b>scientific and technical challenges in building ontology-based services to leverage biomedical ontologies and terminologies in indexing, mining and retrieval of French biomedical data.</b> We will build an ontology-based indexing workflow similar to what exists for English resources (e.g., NCBO Annotator) but dedicated and specialized for French and make it available as a service for the community. We will use this workflow for semantic indexing of French biomedical data. We will investigate issues related to multilingual knowledge representation (complex alignments between multilingual ontologies) and maintenance/evolution of created annotations and mappings over time. Especially, the use of the multilingual (French-English) mappings will enable us to index French resources using English ontologies and to search English resources, already indexed with English ontologies. We envision potential interesting result in semantic search and automatic translation. We will also investigate the process of lifting the annotated data in the web of linked data. The project will partially <b>reuse the work done by the NCBO project, led by Stanford BMIR. We will also capitalize upon existing tools developed by CISMeF.</b> Methods will be generalizable to other languages and domains of application.<o:p></o:p></span></p><h1 style='mso-list:l0 level1 lfo1'><b>Subject:<o:p></o:p></b></h1><p class=Normal-encadr style='margin-left:0cm;text-indent:0cm;mso-list:l0 level1 lfo1'><span lang=EN-US>The community has already invested efforts in developing ontology Web portals to assist health professionals and users in the use of biomedical ontologies and terminologies (e.g., browsing, visualizing, commenting and indexing). For instances, <b>BioPortal (</b></span><a href="http://bioportal.bioontology.org"><b><span lang=EN-US>http://bioportal.bioontology.org</span></b></a><b><span lang=EN-US>)</span></b><span lang=EN-US> & <b>HeTOP (<a href="http://www.hetop.eu">http://www.hetop.eu</a>)</b> developed respectively by Stanford University and CISMeF. <o:p></o:p></span></p><p class=Normal-encadr style='margin-left:0cm;text-indent:0cm;mso-list:l0 level1 lfo1'><span lang=EN-US>The PhD project will consist in investigating the technological and scientific issues to enable semantic interoperability of BioPortal and HeTOP but also ontology portals in general. Also, the project will use semantic web methodologies and technologies to extract and represent multilingual mappings (i.e., alignments) between biomedical ontologies and use these mappings to enable multilingual indexing and search of biomedical data. Possible application to automated translation could be also considered.<o:p></o:p></span></p><h1 style='mso-list:l0 level1 lfo1'><b><span lang=EN-US>Detailed Description:<o:p></o:p></span></b></h1><p class=Normal-encadr style='mso-list:none'><a href="http://www.lirmm.fr/sifr/positions/2013_SIFR_PhD_position.html"><span lang=EN-US>http://www.lirmm.fr/sifr/positions/2013_SIFR_PhD_position.html</span></a><span lang=EN-US><o:p></o:p></span></p><h1 style='mso-list:l0 level1 lfo1'><b><span lang=EN-US>Application:<o:p></o:p></span></b></h1><p class=Normal-encadr style='margin-left:0cm;text-indent:0cm;mso-list:l0 level1 lfo1'><span lang=EN-US>For more information about this position, please contact Clement Jonquet (<a href="mailto:jonquet@lirmm.fr">jonquet@lirmm.fr</a>), Lina Soualmia (</span><a href="mailto:lina.soualmia@chu-rouen.fr"><span lang=EN-US>lina.soualmia@chu-rouen.fr</span></a><span lang=EN-US>) and Stefan J. Darmoni (</span><a href="mailto:stefan.darmoni@chu-rouen.fr"><span lang=EN-US>stefan.darmoni@chu-rouen.fr</span></a><span lang=EN-US>). To apply, please e-mail the following:<o:p></o:p></span></p><p class=Normal-encadr align=left style='text-align:left;mso-list:none'><span lang=EN-US>- an explanation of your interest in the proposed research field;<br>- a curriculum vitae;<br>- copies of diplomas and other relevant certificates;<br>- a complete list of courses attended and corresponding grades;<br>- names and contact details of referees.<o:p></o:p></span></p><p class=Normal-encadr style='mso-list:none'><span lang=EN-US>Master students in informatics/computer science. Experience in semantic web technologies and good software/web engineering capabilities are highly preferable.<o:p></o:p></span></p><p class=Normal-encadr style='mso-list:none'><span lang=EN-US>Motivation for the subject is mandatory and personal initiatives is a must have. You will be at the center of a 3-part collaboration with LIRMM-CISMeF-NCBO.<o:p></o:p></span></p><p class=Normal-encadr align=left style='text-align:left;mso-list:none'><span lang=EN-US>We strongly recommend a perfect knowledge of English and a good knowledge of French.<o:p></o:p></span></p><p class=MsoNormal><span lang=EN-US><o:p> </o:p></span></p><p class=MsoNormal><span lang=EN-US><o:p> </o:p></span></p><p class=MsoNormal><span lang=EN-US>Best regards, <o:p></o:p></span></p><p class=MsoNormal><span lang=EN-US style='mso-fareast-language:FR'>CJ</span><o:p></o:p></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'>PI of the <a href="http://www.lirmm.fr/sifr/"><span style='color:blue'>SIFR project</span></a>: Semantic Indexing of French Biomedical Data Resources (ANR, UM2, CNRS)</span></i><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'><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">
<v:stroke joinstyle="miter" />
<v:formulas>
<v:f eqn="if lineDrawn pixelLineWidth 0" />
<v:f eqn="sum @0 1 0" />
<v:f eqn="sum 0 0 @1" />
<v:f eqn="prod @2 1 2" />
<v:f eqn="prod @3 21600 pixelWidth" />
<v:f eqn="prod @3 21600 pixelHeight" />
<v:f eqn="sum @0 0 1" />
<v:f eqn="prod @6 1 2" />
<v:f eqn="prod @7 21600 pixelWidth" />
<v:f eqn="sum @8 21600 0" />
<v:f eqn="prod @7 21600 pixelHeight" />
<v:f eqn="sum @10 21600 0" />
</v:formulas>
<v:path o:extrusionok="f" gradientshapeok="t" o:connecttype="rect" />
<o:lock v:ext="edit" aspectratio="t" />
</v:shapetype><v:shape id="Group_x0020_2" o:spid="_x0000_s1026" type="#_x0000_t75" style='position:absolute;margin-left:14.25pt;margin-top:76.5pt;width:381.75pt;height:39pt;z-index:251659264;visibility:visible;mso-width-percent:0;mso-height-percent:0;mso-wrap-distance-left:9pt;mso-wrap-distance-top:0;mso-wrap-distance-right:9pt;mso-wrap-distance-bottom:0;mso-position-horizontal:absolute;mso-position-horizontal-relative:char;mso-position-vertical:absolute;mso-position-vertical-relative:line;mso-width-percent:0;mso-height-percent:0;mso-width-relative:page;mso-height-relative:page'>
<o:lock v:ext="edit" aspectratio="f" />
<w:wrap anchory="line"/>
<w:anchorlock/>
</v:shape><![endif]--><![if !vml]><span style='mso-ignore:vglayout'><table cellpadding=0 cellspacing=0 align=left><tr><td width=19 height=102></td></tr><tr><td></td><td><img width=509 height=52 src="cid:image001.png@01CE741B.E9A867B0" v:shapes="Group_x0020_2"></td></tr></table></span><![endif]><span lang=EN-US style='mso-fareast-language:FR'><o:p> </o:p></span></p><p class=MsoNormal><span style='mso-fareast-language:FR'><o:p> </o:p></span></p><p class=MsoNormal><o:p> </o:p></p><p class=MsoNormal><o:p> </o:p></p></div></body></html>