AustralieFrV1, Main, Exploration, bibRecord, 005A59

MyMiner: a web application for computer-assisted biocuration and text annotation

Identifieur interne : 005A59 ( Main/Exploration ); précédent : 005A58; suivant : 005A60

MyMiner: a web application for computer-assisted biocuration and text annotation

Auteurs : David Salgado [Australie] ; Martin Krallinger [Espagne] ; Marc Depaule [France] ; Elodie Drula [France] ; Ashish V. Tendulkar [Inde] ; Florian Leitner [Espagne] ; Alfonso Valencia [Espagne] ; Christophe Marcelle [Australie]

Source :

Bioinformatics : (Oxford. Print) [ 1367-4803 ] ; 2012.

RBID : Pascal:12-0341735

Descripteurs français

Pascal (Inist)
- Ordinateur, Texte, Annotation, Application web.
Wicri :
- topic : Ordinateur.

English descriptors

KwdEn :
- Annotation, Computer, Text.

Abstract

Motivation: The exponential growth of scientific literature has resulted in a massive amount of unstructured natural language data that cannot be directly handled by means of bioinformatics tools. Such tools generally require structured data, often generated through a cumbersome process of manual literature curation. Herein, we present MyMiner, a free and user-friendly text annotation tool aimed to assist in carrying out the main biocuration tasks and to provide labelled data for the development of text mining systems. MyMiner allows easy classification and labelling of textual data according to user-specified classes as well as predefined biological entities. The usefulness and efficiency of this application have been tested for a range of real-life annotation scenarios of various research topics.

Affiliations:

Links toward previous steps (curation, corpus...)

to stream PascalFrancis, to step Corpus: 001090
to stream PascalFrancis, to step Curation: 004E27
to stream PascalFrancis, to step Checkpoint: 000F22
to stream Main, to step Merge: 005D57
to stream Main, to step Curation: 005A59

Le document en format XML

<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en" level="a">MyMiner: a web application for computer-assisted biocuration and text annotation</title>
<author><name sortKey="Salgado, David" sort="Salgado, David" uniqKey="Salgado D" first="David" last="Salgado">David Salgado</name>
<affiliation wicri:level="1"><inist:fA14 i1="01"><s1>Australian Regenerative Medicine Institute (ARMI), Monash University</s1>
<s2>Clayton, Victoria 3800</s2>
<s3>AUS</s3>
<sZ>1 aut.</sZ>
<sZ>8 aut.</sZ>
</inist:fA14>
<country>Australie</country>
<wicri:noRegion>Clayton, Victoria 3800</wicri:noRegion>
</affiliation>
</author>
<author><name sortKey="Krallinger, Martin" sort="Krallinger, Martin" uniqKey="Krallinger M" first="Martin" last="Krallinger">Martin Krallinger</name>
<affiliation wicri:level="2"><inist:fA14 i1="02"><s1>Structural Biology and BioComputing Programme, Spanish National Cancer Research Centre (CNIO), C/ Melchor Fernandez Almagro, 3</s1>
<s2>28029 Madrid</s2>
<s3>ESP</s3>
<sZ>2 aut.</sZ>
<sZ>6 aut.</sZ>
<sZ>7 aut.</sZ>
</inist:fA14>
<country>Espagne</country>
<placeName><region nuts="2" type="communauté">Communauté de Madrid</region>
</placeName>
</affiliation>
</author>
<author><name sortKey="Depaule, Marc" sort="Depaule, Marc" uniqKey="Depaule M" first="Marc" last="Depaule">Marc Depaule</name>
<affiliation wicri:level="4"><inist:fA14 i1="03"><s1>Developmental Biology Institute of Marseille Luminy (IBDML), CNRS UMR 6216, Universite de la Mediterranee, Campus de Luminy</s1>
<s2>13288 Marseille</s2>
<s3>FRA</s3>
<sZ>3 aut.</sZ>
<sZ>4 aut.</sZ>
</inist:fA14>
<country>France</country>
<wicri:noRegion>13288 Marseille</wicri:noRegion>
<placeName><settlement type="city">Marseille</settlement>
<region type="région" nuts="2">Provence-Alpes-Côte d'Azur</region>
<settlement type="city">Marseille</settlement>
</placeName>
<orgName type="university">Université de la Méditerranée</orgName>
</affiliation>
</author>
<author><name sortKey="Drula, Elodie" sort="Drula, Elodie" uniqKey="Drula E" first="Elodie" last="Drula">Elodie Drula</name>
<affiliation wicri:level="4"><inist:fA14 i1="03"><s1>Developmental Biology Institute of Marseille Luminy (IBDML), CNRS UMR 6216, Universite de la Mediterranee, Campus de Luminy</s1>
<s2>13288 Marseille</s2>
<s3>FRA</s3>
<sZ>3 aut.</sZ>
<sZ>4 aut.</sZ>
</inist:fA14>
<country>France</country>
<wicri:noRegion>13288 Marseille</wicri:noRegion>
<placeName><settlement type="city">Marseille</settlement>
<region type="région" nuts="2">Provence-Alpes-Côte d'Azur</region>
<settlement type="city">Marseille</settlement>
</placeName>
<orgName type="university">Université de la Méditerranée</orgName>
</affiliation>
<affiliation wicri:level="1"><inist:fA14 i1="04"><s1>AFMB, UMR 6098 CNRS/UI/UII, Case 932</s1>
<s2>13288 Marseille</s2>
<s3>FRA</s3>
<sZ>4 aut.</sZ>
</inist:fA14>
<country>France</country>
<wicri:noRegion>13288 Marseille</wicri:noRegion>
<placeName><settlement type="city">Marseille</settlement>
<region type="région" nuts="2">Provence-Alpes-Côte d'Azur</region>
</placeName>
</affiliation>
</author>
<author><name sortKey="Tendulkar, Ashish V" sort="Tendulkar, Ashish V" uniqKey="Tendulkar A" first="Ashish V." last="Tendulkar">Ashish V. Tendulkar</name>
<affiliation wicri:level="1"><inist:fA14 i1="05"><s1>Department of Computer Science and Engineering, Indian Institute of Technology (IIT)</s1>
<s2>Madras, Chennai 600 036</s2>
<s3>IND</s3>
<sZ>5 aut.</sZ>
</inist:fA14>
<country>Inde</country>
<wicri:noRegion>Madras, Chennai 600 036</wicri:noRegion>
</affiliation>
</author>
<author><name sortKey="Leitner, Florian" sort="Leitner, Florian" uniqKey="Leitner F" first="Florian" last="Leitner">Florian Leitner</name>
<affiliation wicri:level="2"><inist:fA14 i1="02"><s1>Structural Biology and BioComputing Programme, Spanish National Cancer Research Centre (CNIO), C/ Melchor Fernandez Almagro, 3</s1>
<s2>28029 Madrid</s2>
<s3>ESP</s3>
<sZ>2 aut.</sZ>
<sZ>6 aut.</sZ>
<sZ>7 aut.</sZ>
</inist:fA14>
<country>Espagne</country>
<placeName><region nuts="2" type="communauté">Communauté de Madrid</region>
</placeName>
</affiliation>
</author>
<author><name sortKey="Valencia, Alfonso" sort="Valencia, Alfonso" uniqKey="Valencia A" first="Alfonso" last="Valencia">Alfonso Valencia</name>
<affiliation wicri:level="2"><inist:fA14 i1="02"><s1>Structural Biology and BioComputing Programme, Spanish National Cancer Research Centre (CNIO), C/ Melchor Fernandez Almagro, 3</s1>
<s2>28029 Madrid</s2>
<s3>ESP</s3>
<sZ>2 aut.</sZ>
<sZ>6 aut.</sZ>
<sZ>7 aut.</sZ>
</inist:fA14>
<country>Espagne</country>
<placeName><region nuts="2" type="communauté">Communauté de Madrid</region>
</placeName>
</affiliation>
</author>
<author><name sortKey="Marcelle, Christophe" sort="Marcelle, Christophe" uniqKey="Marcelle C" first="Christophe" last="Marcelle">Christophe Marcelle</name>
<affiliation wicri:level="1"><inist:fA14 i1="01"><s1>Australian Regenerative Medicine Institute (ARMI), Monash University</s1>
<s2>Clayton, Victoria 3800</s2>
<s3>AUS</s3>
<sZ>1 aut.</sZ>
<sZ>8 aut.</sZ>
</inist:fA14>
<country>Australie</country>
<wicri:noRegion>Clayton, Victoria 3800</wicri:noRegion>
</affiliation>
</author>
</titleStmt>
<publicationStmt><idno type="wicri:source">INIST</idno>
<idno type="inist">12-0341735</idno>
<date when="2012">2012</date>
<idno type="stanalyst">PASCAL 12-0341735 INIST</idno>
<idno type="RBID">Pascal:12-0341735</idno>
<idno type="wicri:Area/PascalFrancis/Corpus">001090</idno>
<idno type="wicri:Area/PascalFrancis/Curation">004E27</idno>
<idno type="wicri:Area/PascalFrancis/Checkpoint">000F22</idno>
<idno type="wicri:explorRef" wicri:stream="PascalFrancis" wicri:step="Checkpoint">000F22</idno>
<idno type="wicri:doubleKey">1367-4803:2012:Salgado D:myminer:a:web</idno>
<idno type="wicri:Area/Main/Merge">005D57</idno>
<idno type="wicri:Area/Main/Curation">005A59</idno>
<idno type="wicri:Area/Main/Exploration">005A59</idno>
</publicationStmt>
<sourceDesc><biblStruct><analytic><title xml:lang="en" level="a">MyMiner: a web application for computer-assisted biocuration and text annotation</title>
<author><name sortKey="Salgado, David" sort="Salgado, David" uniqKey="Salgado D" first="David" last="Salgado">David Salgado</name>
<affiliation wicri:level="1"><inist:fA14 i1="01"><s1>Australian Regenerative Medicine Institute (ARMI), Monash University</s1>
<s2>Clayton, Victoria 3800</s2>
<s3>AUS</s3>
<sZ>1 aut.</sZ>
<sZ>8 aut.</sZ>
</inist:fA14>
<country>Australie</country>
<wicri:noRegion>Clayton, Victoria 3800</wicri:noRegion>
</affiliation>
</author>
<author><name sortKey="Krallinger, Martin" sort="Krallinger, Martin" uniqKey="Krallinger M" first="Martin" last="Krallinger">Martin Krallinger</name>
<affiliation wicri:level="2"><inist:fA14 i1="02"><s1>Structural Biology and BioComputing Programme, Spanish National Cancer Research Centre (CNIO), C/ Melchor Fernandez Almagro, 3</s1>
<s2>28029 Madrid</s2>
<s3>ESP</s3>
<sZ>2 aut.</sZ>
<sZ>6 aut.</sZ>
<sZ>7 aut.</sZ>
</inist:fA14>
<country>Espagne</country>
<placeName><region nuts="2" type="communauté">Communauté de Madrid</region>
</placeName>
</affiliation>
</author>
<author><name sortKey="Depaule, Marc" sort="Depaule, Marc" uniqKey="Depaule M" first="Marc" last="Depaule">Marc Depaule</name>
<affiliation wicri:level="4"><inist:fA14 i1="03"><s1>Developmental Biology Institute of Marseille Luminy (IBDML), CNRS UMR 6216, Universite de la Mediterranee, Campus de Luminy</s1>
<s2>13288 Marseille</s2>
<s3>FRA</s3>
<sZ>3 aut.</sZ>
<sZ>4 aut.</sZ>
</inist:fA14>
<country>France</country>
<wicri:noRegion>13288 Marseille</wicri:noRegion>
<placeName><settlement type="city">Marseille</settlement>
<region type="région" nuts="2">Provence-Alpes-Côte d'Azur</region>
<settlement type="city">Marseille</settlement>
</placeName>
<orgName type="university">Université de la Méditerranée</orgName>
</affiliation>
</author>
<author><name sortKey="Drula, Elodie" sort="Drula, Elodie" uniqKey="Drula E" first="Elodie" last="Drula">Elodie Drula</name>
<affiliation wicri:level="4"><inist:fA14 i1="03"><s1>Developmental Biology Institute of Marseille Luminy (IBDML), CNRS UMR 6216, Universite de la Mediterranee, Campus de Luminy</s1>
<s2>13288 Marseille</s2>
<s3>FRA</s3>
<sZ>3 aut.</sZ>
<sZ>4 aut.</sZ>
</inist:fA14>
<country>France</country>
<wicri:noRegion>13288 Marseille</wicri:noRegion>
<placeName><settlement type="city">Marseille</settlement>
<region type="région" nuts="2">Provence-Alpes-Côte d'Azur</region>
<settlement type="city">Marseille</settlement>
</placeName>
<orgName type="university">Université de la Méditerranée</orgName>
</affiliation>
<affiliation wicri:level="1"><inist:fA14 i1="04"><s1>AFMB, UMR 6098 CNRS/UI/UII, Case 932</s1>
<s2>13288 Marseille</s2>
<s3>FRA</s3>
<sZ>4 aut.</sZ>
</inist:fA14>
<country>France</country>
<wicri:noRegion>13288 Marseille</wicri:noRegion>
<placeName><settlement type="city">Marseille</settlement>
<region type="région" nuts="2">Provence-Alpes-Côte d'Azur</region>
</placeName>
</affiliation>
</author>
<author><name sortKey="Tendulkar, Ashish V" sort="Tendulkar, Ashish V" uniqKey="Tendulkar A" first="Ashish V." last="Tendulkar">Ashish V. Tendulkar</name>
<affiliation wicri:level="1"><inist:fA14 i1="05"><s1>Department of Computer Science and Engineering, Indian Institute of Technology (IIT)</s1>
<s2>Madras, Chennai 600 036</s2>
<s3>IND</s3>
<sZ>5 aut.</sZ>
</inist:fA14>
<country>Inde</country>
<wicri:noRegion>Madras, Chennai 600 036</wicri:noRegion>
</affiliation>
</author>
<author><name sortKey="Leitner, Florian" sort="Leitner, Florian" uniqKey="Leitner F" first="Florian" last="Leitner">Florian Leitner</name>
<affiliation wicri:level="2"><inist:fA14 i1="02"><s1>Structural Biology and BioComputing Programme, Spanish National Cancer Research Centre (CNIO), C/ Melchor Fernandez Almagro, 3</s1>
<s2>28029 Madrid</s2>
<s3>ESP</s3>
<sZ>2 aut.</sZ>
<sZ>6 aut.</sZ>
<sZ>7 aut.</sZ>
</inist:fA14>
<country>Espagne</country>
<placeName><region nuts="2" type="communauté">Communauté de Madrid</region>
</placeName>
</affiliation>
</author>
<author><name sortKey="Valencia, Alfonso" sort="Valencia, Alfonso" uniqKey="Valencia A" first="Alfonso" last="Valencia">Alfonso Valencia</name>
<affiliation wicri:level="2"><inist:fA14 i1="02"><s1>Structural Biology and BioComputing Programme, Spanish National Cancer Research Centre (CNIO), C/ Melchor Fernandez Almagro, 3</s1>
<s2>28029 Madrid</s2>
<s3>ESP</s3>
<sZ>2 aut.</sZ>
<sZ>6 aut.</sZ>
<sZ>7 aut.</sZ>
</inist:fA14>
<country>Espagne</country>
<placeName><region nuts="2" type="communauté">Communauté de Madrid</region>
</placeName>
</affiliation>
</author>
<author><name sortKey="Marcelle, Christophe" sort="Marcelle, Christophe" uniqKey="Marcelle C" first="Christophe" last="Marcelle">Christophe Marcelle</name>
<affiliation wicri:level="1"><inist:fA14 i1="01"><s1>Australian Regenerative Medicine Institute (ARMI), Monash University</s1>
<s2>Clayton, Victoria 3800</s2>
<s3>AUS</s3>
<sZ>1 aut.</sZ>
<sZ>8 aut.</sZ>
</inist:fA14>
<country>Australie</country>
<wicri:noRegion>Clayton, Victoria 3800</wicri:noRegion>
</affiliation>
</author>
</analytic>
<series><title level="j" type="main">Bioinformatics : (Oxford. Print)</title>
<title level="j" type="abbreviated">Bioinformatics : (Oxf., Print)</title>
<idno type="ISSN">1367-4803</idno>
<imprint><date when="2012">2012</date>
</imprint>
</series>
</biblStruct>
</sourceDesc>
<seriesStmt><title level="j" type="main">Bioinformatics : (Oxford. Print)</title>
<title level="j" type="abbreviated">Bioinformatics : (Oxf., Print)</title>
<idno type="ISSN">1367-4803</idno>
</seriesStmt>
</fileDesc>
<profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Annotation</term>
<term>Computer</term>
<term>Text</term>
</keywords>
<keywords scheme="Pascal" xml:lang="fr"><term>Ordinateur</term>
<term>Texte</term>
<term>Annotation</term>
<term>Application web</term>
</keywords>
<keywords scheme="Wicri" type="topic" xml:lang="fr"><term>Ordinateur</term>
</keywords>
</textClass>
</profileDesc>
</teiHeader>
<front><div type="abstract" xml:lang="en">Motivation: The exponential growth of scientific literature has resulted in a massive amount of unstructured natural language data that cannot be directly handled by means of bioinformatics tools. Such tools generally require structured data, often generated through a cumbersome process of manual literature curation. Herein, we present MyMiner, a free and user-friendly text annotation tool aimed to assist in carrying out the main biocuration tasks and to provide labelled data for the development of text mining systems. MyMiner allows easy classification and labelling of textual data according to user-specified classes as well as predefined biological entities. The usefulness and efficiency of this application have been tested for a range of real-life annotation scenarios of various research topics.</div>
</front>
</TEI>
<affiliations><list><country><li>Australie</li>
<li>Espagne</li>
<li>France</li>
<li>Inde</li>
</country>
<region><li>Communauté de Madrid</li>
<li>Provence-Alpes-Côte d'Azur</li>
</region>
<settlement><li>Marseille</li>
</settlement>
<orgName><li>Université de la Méditerranée</li>
</orgName>
</list>
<tree><country name="Australie"><noRegion><name sortKey="Salgado, David" sort="Salgado, David" uniqKey="Salgado D" first="David" last="Salgado">David Salgado</name>
</noRegion>
<name sortKey="Marcelle, Christophe" sort="Marcelle, Christophe" uniqKey="Marcelle C" first="Christophe" last="Marcelle">Christophe Marcelle</name>
</country>
<country name="Espagne"><region name="Communauté de Madrid"><name sortKey="Krallinger, Martin" sort="Krallinger, Martin" uniqKey="Krallinger M" first="Martin" last="Krallinger">Martin Krallinger</name>
</region>
<name sortKey="Leitner, Florian" sort="Leitner, Florian" uniqKey="Leitner F" first="Florian" last="Leitner">Florian Leitner</name>
<name sortKey="Valencia, Alfonso" sort="Valencia, Alfonso" uniqKey="Valencia A" first="Alfonso" last="Valencia">Alfonso Valencia</name>
</country>
<country name="France"><region name="Provence-Alpes-Côte d'Azur"><name sortKey="Depaule, Marc" sort="Depaule, Marc" uniqKey="Depaule M" first="Marc" last="Depaule">Marc Depaule</name>
</region>
<name sortKey="Drula, Elodie" sort="Drula, Elodie" uniqKey="Drula E" first="Elodie" last="Drula">Elodie Drula</name>
<name sortKey="Drula, Elodie" sort="Drula, Elodie" uniqKey="Drula E" first="Elodie" last="Drula">Elodie Drula</name>
</country>
<country name="Inde"><noRegion><name sortKey="Tendulkar, Ashish V" sort="Tendulkar, Ashish V" uniqKey="Tendulkar A" first="Ashish V." last="Tendulkar">Ashish V. Tendulkar</name>
</noRegion>
</country>
</tree>
</affiliations>
</record>

Pour manipuler ce document sous Unix (Dilib)

EXPLOR_STEP=$WICRI_ROOT/Wicri/Asie/explor/AustralieFrV1/Data/Main/Exploration

HfdSelect -h $EXPLOR_STEP/biblio.hfd -nk 005A59 | SxmlIndent | more

HfdSelect -h $EXPLOR_AREA/Data/Main/Exploration/biblio.hfd -nk 005A59 | SxmlIndent | more

Pour mettre un lien sur cette page dans le réseau Wicri

{{Explor lien
   |wiki=    Wicri/Asie
   |area=    AustralieFrV1
   |flux=    Main
   |étape=   Exploration
   |type=    RBID
   |clé=     Pascal:12-0341735
   |texte=   MyMiner: a web application for computer-assisted biocuration and text annotation
}}

This area was generated with Dilib version V0.6.33.
Data generation: Tue Dec 5 10:43:12 2017. Site generation: Tue Mar 5 14:07:20 2024

	Serveur d'exploration sur les relations entre la France et l'Australie
	Attention, ce site est en cours de développement ! Attention, site généré par des moyens informatiques à partir de corpus bruts. Les informations ne sont donc pas validées.

Serveur d'exploration sur les relations entre la France et l'Australie

MyMiner: a web application for computer-assisted biocuration and text annotation

MyMiner: a web application for computer-assisted biocuration and text annotation

Source :

Descripteurs français

English descriptors

Abstract

Links toward previous steps (curation, corpus...)

Le document en format XML

Pour manipuler ce document sous Unix (Dilib)

Pour mettre un lien sur cette page dans le réseau Wicri