Difference between revisions of "BioNLP 2023"

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[[SIGBIOMED]]
 
[[SIGBIOMED]]
  
 +
<font size="4"><b>BIONLP 2017</b></font>
  
 +
An ACL 2017 Workshop associated with the SIGBIOMED special interest group, featuring an associated task: BioASQ ( http://www.bioasq.org/)
 +
 +
Vancouver, Canada, Friday August 4, 2017
 +
 +
 +
===IMPORTANT DATES===
 +
 +
*Submission deadline: Wednesday April 26, 2017 11:59 PM Eastern US
 +
*Notification of acceptance: Monday May 22, 2017
 +
*Camera-ready copy due from authors:  Friday May 26, 2017
 +
*Workshop: Friday August 4, 2017
 +
 +
 +
===SUBMISSION INSTRUCTIONS===
 +
 +
Two types of submissions are invited: full papers and short papers.
 +
Submissions are due by 11:59 PM EST on Wednesday April 26, 2017.
 +
 +
Full papers should not exceed eight (8) pages of text, plus two pages of references. These are intended to be reports of original research. BioNLP aims to be the forum for interesting, innovative, and promising work involving biomedicine and language technology, whether or not yielding high performance at the moment. This by no means precludes our interest in and preference for mature results, strong performance, and thorough evaluation.  Both types of research and combinations thereof are encouraged. 
 +
 +
Short papers may consist of up to four (4) pages of content, plus unlimited references. Appropriate short paper topics include preliminary results, application notes, descriptions of work in progress, etc.
 +
 +
Electronic Submission
 +
Submissions must be electronic and in PDF format, using the Softconf START conference management system at https://www.softconf.com/acl2017/bionlp/
 +
We strongly recommend the use of ACL LaTeX style files tailored for this year's conference. Submissions must conform to the official style guidelines. Style files and other information about paper formatting requirements are available on the conference website, http://acl2017.org/. 
 +
 +
Submissions need to be anonymous.
 +
 +
Dual submission policy: papers may NOT be submitted to  the BioNLP 2017 workshop if they are or will be concurrently submitted to another meeting or publication.
 +
 +
 +
===WORKSHOP OVERVIEW AND SCOPE===
 +
 +
Over the course of the past fifteen years, the ACL BioNLP workshop associated with the SIGBIOMED special interest group has established itself as the primary venue for presenting foundational research in language processing for the biological and medical domains. The workshop serves as both a venue for bringing together researchers in bio- and clinical NLP and exposing these researchers to the mainstream ACL research, and a venue for informing the mainstream ACL researchers about the fast growing and important domain.
 +
The workshop will continue presenting work on a broad and interesting range of topics in NLP.
 +
 +
The active areas of research include, but are not limited to:
 +
* Entity identification and normalization for a broad range of semantic categories
 +
* Extraction of complex relations and events
 +
* Semantic parsing
 +
* Discourse analysis
 +
* Anaphora /Coreference resolution
 +
* Text mining
 +
* Literature based discovery
 +
* Summarization
 +
* Question Answering
 +
* Resources and novel strategies for system testing and evaluation
 +
* Infrastructures for biomedical text mining
 +
* Processing and annotation platforms
 +
* Translating NLP research to practice
 +
* Theoretical underpinnings of biomedical language processing
 +
* Research Reproducibility
 +
 +
<b>Program Committee:</b>
 +
 +
  * Sophia Ananiadou, National Centre for Text Mining and University of Manchester, UK
 +
  * Ion Androutsopoulos, Athens University of Economics and Business, Greece
 +
  * Emilia Apostolova, Language.ai, USA
 +
  * Eiji Aramaki, University of Tokyo, Japan
 +
  * Alan Aronson, US National Library of Medicine
 +
  * Asma Ben Abacha, US National Library of Medicine
 +
  * Olivier Bodenreider, US National Library of Medicine
 +
  * Leonardo Campillos Llanos, LIMSI - CNRS, France
 +
  * Juan Miguel Cejuela, Technische Universit&auml;t M&uuml;nchen, Germany
 +
  * Kevin Bretonnel Cohen, University of Colorado School of Medicine, USA
 +
  * Nigel Collier, University of Cambridge, UK
 +
<!-- * Aaron Cohen, Oregon Health and Science University -->
 +
  * Dina Demner-Fushman, US National Library of Medicine
 +
  * Patrick Gallinari, Université Pierre et Marie Curie, France
 +
  * Filip Ginter, University of Turku, Finland
 +
  * Graciela Gonzalez, University of Pennsylvania, USA
 +
  * Cyril Grouin, LIMSI - CNRS, France
 +
  * Antonio Jimeno Yepes, IBM, Melbourne Area, Australia
 +
  * Aris Kosmopoulos, NCSR Demokritos, Greece
 +
  * Halil Kilicoglu, US National Library of Medicine
 +
  * Robert Leaman, US National Library of Medicine
 +
  <!-- * Ulf Leser, Humboldt-Universit&auml;t zu Berlin, Germany -->
 +
  * Zhiyong Lu, US National Library of Medicine
 +
  * Prodromes Malakasiotis, Athens University of Economics and Business, Greece
 +
  * Timothy Miller, Children’s Hospital Boston, USA
 +
  * Makoto Miwa, Toyota Technological Institute, Japan
 +
  * Jim Mork, National Library of Medicine, USA
 +
  * Danielle L Mowery, VA Salt Lake City Health Care System, USA
 +
  * Yassine M'Rabet, US National Library of Medicine
 +
  * Henning M&uuml;ller, University of Applied Sciences, Switzerland
 +
  * Claire Nédellec, INRA, France
 +
  * Anastasios Nentidis, NCSR Demokritos, Athens, Greece
 +
  * Aurelie Neveol, LIMSI - CNRS, France
 +
  * Mariana Neves, Hasso Plattner Institute and University of Potsdam, Germany
 +
  * Nhung Nguyen, The University of Manchester, UK
 +
  * Naoaki Okazaki, Tohoku University, Japan
 +
  * Georgios Paliouras, NCSR Demokritos, Athens, Greece
 +
  * John Prager, Thomas J. Watson Research Center, IBM, USA
 +
  * Sampo Pyysalo, University of Cambridge, UK
 +
<!--  * Bastien Rance, Hopital Europeen Georges Pompidou, France -->
 +
  * Francisco J. Ribadas-Pena, University of Vigo, Spain
 +
  * Fabio Rinaldi,  University of Zurich, Switzerland
 +
<!--  * Thomas Rindflescht, US National Library of Medicine -->
 +
  * Kirk Roberts, The University of Texas Health Science Center at Houston, USA
 +
  * Angus Roberts, The University of Sheffield, UK
 +
<!--  * Yoshimasa Tsuruoka, University of Tokyo, Japan -->
 +
  * Hagit Shatkay, University of Delaware, USA
 +
  * Pontus Stenetorp, University College London, UK
 +
  * George Tsatsaronis, Technical University of Dresden, Germany
 +
  * Karin Verspoor, The University of Melbourne, Australia
 +
  * Byron C. Wallace,  University of Texas at Austin, USA
 +
  * W John Wilbur, US National Library of Medicine
 +
  * Hai Zhao, Shanghai Jiao Tong University, Shanghai
 +
  * Pierre Zweigenbaum, LIMSI - CNRS, France
 +
 +
Organizers:
 +
  Kevin Bretonnel Cohen, University of Colorado School of Medicine
 +
  Dina Demner-Fushman, US National Library of Medicine
 +
  Sophia Ananiadou, National Centre for Text Mining and University of Manchester, UK
 +
  Jun-ichi Tsujii, National Institute of Advanced Industrial Science and Technology, Japan and University of Manchester, UK
 +
 +
===ACL Anti-Harassment Policy===
 +
https://www.aclweb.org/adminwiki/index.php?title=Anti-Harassment_Policy
 +
 +
If you have any concerns  or experience harassment or hostile behavior please contact Dina Demner-Fushman,  Kevin Bretonnel Cohen or any current member of the ACL Executive Committee.
 +
 +
<!--
 
==BIONLP 2016 ==
 
==BIONLP 2016 ==
  
 
An ACL 2016 Workshop associated with the [[SIGBIOMED]] special interest group Featuring two associated tasks: [http://www.bioasq.org/workshop/  BioASQ] (http://www.bioasq.org/workshop) and [http://2016.bionlp-st.org/  BioNLP-ST]  (http://2016.bionlp-st.org).
 
An ACL 2016 Workshop associated with the [[SIGBIOMED]] special interest group Featuring two associated tasks: [http://www.bioasq.org/workshop/  BioASQ] (http://www.bioasq.org/workshop) and [http://2016.bionlp-st.org/  BioNLP-ST]  (http://2016.bionlp-st.org).
  
−
Berlin, Germany, August 12 -13, 2016
+
Berlin, Germany, August 12 -13, 2016  
  
 
===IMPORTANT DATES===
 
===IMPORTANT DATES===
  
−
<!-- * Submission deadline: Sunday, May 8, 2016, 11:59 PM Eastern US  
+
* Submission deadline: Sunday, May 8, 2016, 11:59 PM Eastern US  
 
* Notification of acceptance: Monday, June 13, 2016  
 
* Notification of acceptance: Monday, June 13, 2016  
−
* Camera-ready copy due from authors:  Wednesday, June 22, 2016 -->
+
* Camera-ready copy due from authors:  Wednesday, June 22, 2016  
 
* BioNLP workshop: Friday, August 12, 2016
 
* BioNLP workshop: Friday, August 12, 2016
 
* BioNLP-ST and BioASQ workshop: Saturday August 13, 2016  
 
* BioNLP-ST and BioASQ workshop: Saturday August 13, 2016  
Line 19: Line 142:
 
==BIONLP 2016 Workshop Schedule==
 
==BIONLP 2016 Workshop Schedule==
  
−
<table cellspacing="0" cellpadding="5" border="0"><tr><td colspan=2 style="padding-top: 14px;"><h4>Friday August 12, 2016</h4></td></tr>
+
<table cellspacing="0" cellpadding="5" border="0"><tr><td colspan=2 style="padding-top: 14px;"><b>Friday August 12, 2016</b></td></tr>
 
<tr><td valign=top style="padding-top: 14px;"><b>8:30&#8211;8:40</b></td><td valign=top style="padding-top: 14px;"><b>Opening remarks</b></td></tr>
 
<tr><td valign=top style="padding-top: 14px;"><b>8:30&#8211;8:40</b></td><td valign=top style="padding-top: 14px;"><b>Opening remarks</b></td></tr>
 
<tr><td valign=top style="padding-top: 14px;"><b>8:40&#8211;10:30</b></td><td valign=top style="padding-top: 14px;"><b>Session 1: Entity extraction and representation</b></td></tr>
 
<tr><td valign=top style="padding-top: 14px;"><b>8:40&#8211;10:30</b></td><td valign=top style="padding-top: 14px;"><b>Session 1: Entity extraction and representation</b></td></tr>
Line 86: Line 209:
 
<tr><td valign=top width=100>&nbsp;</td><td valign=top align=left><i>Relation extraction from clinical texts using domain invariant convolutional neural network</i><br>
 
<tr><td valign=top width=100>&nbsp;</td><td valign=top align=left><i>Relation extraction from clinical texts using domain invariant convolutional neural network</i><br>
 
Sunil Sahu, Ashish Anand, Krishnadev Oruganty and Mahanandeeshwar Gattu</td></tr>
 
Sunil Sahu, Ashish Anand, Krishnadev Oruganty and Mahanandeeshwar Gattu</td></tr>
 +
 +
<tr><td valign=top width=100>&nbsp;</td><td valign=top align=left><i>Results of the 4th edition of BioASQ Challenge</i><br>Anastasia Krithara, Anastasios Nentidis, Georgios Paliouras and Ioannis Kakadiaris</td></tr>
 +
 +
<tr><td valign=top width=100>&nbsp;</td> <td><b>All  August 13 talks are also presented as posters on August 12 and August 13</b></td></tr>
 +
 
</table>
 
</table>
  
−
===WORKSHOP OVERVIEW AND SCOPE===
+
==BioASQ / BioNLP-ST Workshop Program, August 13==
 +
 
 +
<table>
 +
      <tr><td valign=top width=100>'''9:00-9:15'''</td> <td><b>Welcome</b></td></tr>
 +
      <tr><td valign=top width=100>'''9:15-10:15'''</td> <td>'''Invited speaker: Sherri Matis-Mitchell''' <br>Solving Problems and Supporting Decisions in Pharma R&D using Text Analytics: A Recent History</td></tr>
 +
      <tr><td valign=top width=100>10:15-10:30</td> <td>'''Overview of BioASQ'''</td></tr>
 +
      <tr><td valign=top width=100>10:30-11:00</td> <td><b>Coffee break</b></td></tr>
 +
      <tr><td valign=top width=100>11:00-12:30</td> <td><b>BioASQ participant session</b></td></tr>
 +
      <tr><td valign=top width=100>11:00-11:15</td> <td>Using Learning-To-Rank to Enhance NLM Medical Text Indexer Results<br>Ilya Zavorin, James Mork and Dina Demner-Fushman</td></tr>
 +
      <tr><td valign=top width=100>11:15-11:30</td> <td>LABDA at the 2016 BioASQ challenge task 4a: Semantic Indexing by using ElasticSearch <br>Isabel Segura-Bedmar, Adrián Carruana and Paloma Martínez</td></tr>
 +
      <tr><td valign=top width=100>11:30-11:45</td> <td>Learning to Answer Biomedical Questions: OAQA at BioASQ 4B<br>Zi Yang, Yue Zhou and Eric Nyberg</td></tr>
 +
        <tr><td valign=top width=100>11:45-12:00</td> <td>HPI Question Answering System in BioASQ 2016 <br>Frederik Schulze, Ricarda Schuler, Tim Draeger, Daniel Dummer, Alexander Ernst, Pedro Flemming, Cindy Perscheid, Mariana Neves</td></tr>
 +
      <tr><td valign=top width=100>12:00-12:15</td> <td>KSAnswer: Question-answering System of Kangwon National University and Sogang University in the 2016 BioASQ Challenge<br>Hyeon-gu Lee, Minkyoung Kim, Harksoo Kim, Juae Kim, Sunjae Kwon, Jungyun Seo, Yi-Reun Kim and Jung-Kyu Choi</td></tr>
 +
  <tr><td valign=top width=100>12:15-12:30</td> <td>Large-Scale Semantic Indexing and Question Answering in Biomedicine <br>Eirini Papagiannopoulou, Yiannis Papanikolaou, Dimitris Dimitriadis, Sakis Lagopoulos, Grigorios Tsoumakas, Manos Laliotis, Nikos Markantonatos and Ioannis Vlahavas</td></tr>
 +
   
 +
<tr><td valign=top width=100>'''12:30-14:00'''</td> <td><b>Lunch break</b></td></tr>
 +
     
 +
      <tr><td valign=top width=100>'''14:00-14:15'''</td> <td><b>Overview of BioNLP-ST</b></td></tr>
 +
     
 +
      <tr><td valign=top width=100>'''14:15-15:30'''</td> <td>'''BioNLP-ST participant session 1'''</td></tr>
 +
     
 +
      <tr><td valign=top width=100>14:15-14:30</td> <td>LitWay, discriminative extraction for different bio-events<br>Chen Li, Zhiqiang Rao and Xiangrong Zhang</td></tr>
 +
      <tr><td valign=top width=100>14:30-14:45</td> <td>VERSE: Event and relation extraction in the BioNLP 2016 Shared Task<br>Jake Lever and Steven JM Jones</td></tr>
 +
      <tr><td valign=top width=100>14:45-15:00</td> <td>A dictionary- and rule-based system for identification of bacteria and habitats in text<br>Helen Cook, Evangelos Pafilis and Lars Juhl Jensen</td></tr>
 +
    <tr><td valign=top width=100>15:00-15:15</td> <td>Extraction of Regulatory Events Using Kernel-based Classifiers and Distant Supervision<br>Andre Lamurias, Miguel J. Rodrigues, Luka A. Clarke and Francisco M Couto</td></tr>
 +
      <tr><td valign=top width=100>15:15-15:30</td>  <td>Deep Learning With Minimal Training Data: TurkuNLP Entry in The BioNLP Shared Task 2016<br>Farrokh Mehryary, Jari Björne, Sampo Pyysalo, Tapio Salakoski and Filip Ginter</td></tr>
 +
    <tr><td valign=top width=100>'''15:30-16:00'''</td> <td>'''Coffee break'''</td></tr>
 +
      <tr><td valign=top width=100>16:00-17:00</td> <td>'''BioNLP-ST participant session 2'''</td></tr>
 +
      <tr><td valign=top width=100>16:00-16:15</td><td>Identification of mentions and relations between bacteria and biotope from PubMed abstracts<br>Cyril Grouin</td></tr>
 +
  <tr><td valign=top width=100>16:15-16:30</td> <td>SeeDev Binary Event Extraction Using SVMs and a Rich Feature set<br>Nagesh Panyam Chandrasekarasastry, Gitansh Khirbat, Karin Verspoor, Trevor Cohn and Kotagiri Ramamohanarao</td></tr>
 +
      <tr><td valign=top width=100>16:30-16:45</td> <td>Ontology Based Categorization of Bacteria and Habitat Entities using Information Retrieval Techniques<br>Mert Tiftikci, Hakan Şahin, Berfu Büyüköz, Alper Yayıkçı and Arzucan Özgür</td></tr>
 +
      <tr><td valign=top width=100>16:45-17:00</td> <td>DUTIR in BioNLP-ST 2016: Utilizing convolutional network and distributed representation to extract complicate relations<br>Honglei Li, Jianhai Zhang, Jian Wang, Hongfei Lin and Zhihao Yang</td></tr>
 +
     
 +
      <tr><td valign=top width=100>'''17:00-17:30'''</td> <td><b>Closing session</b></td></tr>
 +
 
 +
</table>
 +
<!--
 +
==WORKSHOP OVERVIEW AND SCOPE==
  
 
Over the course of the past fourteen years, the ACL BioNLP workshop associated with the SIGBIOMED special interest group has established itself as the primary venue for presenting foundational research in language processing for the biological and medical domains. The workshop serves as both a venue for bringing together researchers in bio- and clinical NLP and exposing these researchers to the mainstream ACL research, and a venue for informing the mainstream ACL researchers about the fast growing and important domain.   
 
Over the course of the past fourteen years, the ACL BioNLP workshop associated with the SIGBIOMED special interest group has established itself as the primary venue for presenting foundational research in language processing for the biological and medical domains. The workshop serves as both a venue for bringing together researchers in bio- and clinical NLP and exposing these researchers to the mainstream ACL research, and a venue for informing the mainstream ACL researchers about the fast growing and important domain.   
Line 110: Line 275:
 
* Translating NLP research to practice
 
* Translating NLP research to practice
 
* Theoretical underpinnings of biomedical language processing
 
* Theoretical underpinnings of biomedical language processing
 +
-->
 +
 +
  
−
<h5>SUBMISSION INSTRUCTIONS</h5>
+
<!-- <h5>SUBMISSION INSTRUCTIONS</h5>
 
We invite two types of submissions: full papers and short papers.  
 
We invite two types of submissions: full papers and short papers.  
 
Submissions are due by 11:59 PM EST on Sunday May 8, 2016.  
 
Submissions are due by 11:59 PM EST on Sunday May 8, 2016.  
Line 128: Line 296:
  
 
<b>Submissions should be anonymous. </b>
 
<b>Submissions should be anonymous. </b>
−
Dual submission policy: papers may <b>NOT</b> be submitted to  the BioNLP 2016 workshop if they are or will be concurrently submitted to another meeting or publication.  
+
Dual submission policy: papers may <b>NOT</b> be submitted to  the BioNLP 2016 workshop if they are or will be concurrently submitted to another meeting or publication. -->
 
   
 
   
−
<h5>Program Committee:</h5>
+
<!--
 +
<b>Program Committee:</b>
  
 
   * Sophia Ananiadou, National Centre for Text Mining and University of Manchester, UK  
 
   * Sophia Ananiadou, National Centre for Text Mining and University of Manchester, UK  
Line 167: Line 336:
  
  
−
<h5>Organizers</h5>
+
<b>Organizers</b>
 
   * Kevin Bretonnel Cohen, University of Colorado School of Medicine
 
   * Kevin Bretonnel Cohen, University of Colorado School of Medicine
 
   * Dina Demner-Fushman, US National Library of Medicine
 
   * Dina Demner-Fushman, US National Library of Medicine
Line 174: Line 343:
  
  
−
<h5>Two tasks will be associated with the workshop this year:</h5>
+
<h5>The BioNLP Shared Task (BioNLP-ST) and the BioASQ Challenge associated with the workshop</h5>
 
   
 
   
 
The <b>BioNLP Shared Task (BioNLP-ST)</b> has been organized three times so far, leading to the development of information extraction systems for molecular biology and medicine in 2009, 2011 and 2013. One of the major contributions of BioNLP-ST is the availability of resources such as high quality manually curated corpora, tools, and evaluation services.
 
The <b>BioNLP Shared Task (BioNLP-ST)</b> has been organized three times so far, leading to the development of information extraction systems for molecular biology and medicine in 2009, 2011 and 2013. One of the major contributions of BioNLP-ST is the availability of resources such as high quality manually curated corpora, tools, and evaluation services.
 
   
 
   
−
<h5>Shared Task Organizers:</h5>
+
<b>Shared Task Organizers:</b>
  
 
* Jin-Dong Kim, Database Center for Life Science (DBCLS), Japan
 
* Jin-Dong Kim, Database Center for Life Science (DBCLS), Japan
Line 189: Line 358:
 
BioASQ assesses the performance of information systems in supporting two tasks that are central in the biomedical question answering process: (a) the indexing of large volumes of unlabeled data, primarily scientific articles, with biomedical concepts, (b) the processing of biomedical questions and the generation of answers and supporting material.  BioASQ has been making publicly available the following benchmark data and tools: more than 1300 questions and related answers, as well as online "oracle" for objective evaluation of any system throughout the year, not only during the challenge.
 
BioASQ assesses the performance of information systems in supporting two tasks that are central in the biomedical question answering process: (a) the indexing of large volumes of unlabeled data, primarily scientific articles, with biomedical concepts, (b) the processing of biomedical questions and the generation of answers and supporting material.  BioASQ has been making publicly available the following benchmark data and tools: more than 1300 questions and related answers, as well as online "oracle" for objective evaluation of any system throughout the year, not only during the challenge.
 
   
 
   
−
<h5>BioASQ Organizers:</h5>
+
<b>BioASQ Organizers:</b>
 
   
 
   
 
* Georgios Paliouras NCSR "Demokritos", Greece and University of Houston, USA  
 
* Georgios Paliouras NCSR "Demokritos", Greece and University of Houston, USA  
Line 195: Line 364:
 
* Anastasia Krithara, NCSR "Demokritos", Greece
 
* Anastasia Krithara, NCSR "Demokritos", Greece
 
   
 
   
−
 
+
-->
  
 
<!-- ==BIONLP 2015 Workshop Schedule==
 
<!-- ==BIONLP 2015 Workshop Schedule==

Revision as of 10:36, 29 April 2017

SIGBIOMED

BIONLP 2017

An ACL 2017 Workshop associated with the SIGBIOMED special interest group, featuring an associated task: BioASQ ( http://www.bioasq.org/)

Vancouver, Canada, Friday August 4, 2017


IMPORTANT DATES

  • Submission deadline: Wednesday April 26, 2017 11:59 PM Eastern US
  • Notification of acceptance: Monday May 22, 2017
  • Camera-ready copy due from authors: Friday May 26, 2017
  • Workshop: Friday August 4, 2017


SUBMISSION INSTRUCTIONS

Two types of submissions are invited: full papers and short papers. Submissions are due by 11:59 PM EST on Wednesday April 26, 2017.

Full papers should not exceed eight (8) pages of text, plus two pages of references. These are intended to be reports of original research. BioNLP aims to be the forum for interesting, innovative, and promising work involving biomedicine and language technology, whether or not yielding high performance at the moment. This by no means precludes our interest in and preference for mature results, strong performance, and thorough evaluation. Both types of research and combinations thereof are encouraged.

Short papers may consist of up to four (4) pages of content, plus unlimited references. Appropriate short paper topics include preliminary results, application notes, descriptions of work in progress, etc.

Electronic Submission Submissions must be electronic and in PDF format, using the Softconf START conference management system at https://www.softconf.com/acl2017/bionlp/ We strongly recommend the use of ACL LaTeX style files tailored for this year's conference. Submissions must conform to the official style guidelines. Style files and other information about paper formatting requirements are available on the conference website, http://acl2017.org/. 

Submissions need to be anonymous.

Dual submission policy: papers may NOT be submitted to the BioNLP 2017 workshop if they are or will be concurrently submitted to another meeting or publication.


WORKSHOP OVERVIEW AND SCOPE

Over the course of the past fifteen years, the ACL BioNLP workshop associated with the SIGBIOMED special interest group has established itself as the primary venue for presenting foundational research in language processing for the biological and medical domains. The workshop serves as both a venue for bringing together researchers in bio- and clinical NLP and exposing these researchers to the mainstream ACL research, and a venue for informing the mainstream ACL researchers about the fast growing and important domain. The workshop will continue presenting work on a broad and interesting range of topics in NLP.

The active areas of research include, but are not limited to:

  • Entity identification and normalization for a broad range of semantic categories
  • Extraction of complex relations and events
  • Semantic parsing
  • Discourse analysis
  • Anaphora /Coreference resolution
  • Text mining
  • Literature based discovery
  • Summarization
  • Question Answering
  • Resources and novel strategies for system testing and evaluation
  • Infrastructures for biomedical text mining
  • Processing and annotation platforms
  • Translating NLP research to practice
  • Theoretical underpinnings of biomedical language processing
  • Research Reproducibility

Program Committee: 

 * Sophia Ananiadou, National Centre for Text Mining and University of Manchester, UK 
 * Ion Androutsopoulos, Athens University of Economics and Business, Greece
 * Emilia Apostolova, Language.ai, USA
 * Eiji Aramaki, University of Tokyo, Japan 
 * Alan Aronson, US National Library of Medicine 
 * Asma Ben Abacha, US National Library of Medicine 
 * Olivier Bodenreider, US National Library of Medicine 
 * Leonardo Campillos Llanos, LIMSI - CNRS, France
 * Juan Miguel Cejuela, Technische Universität München, Germany
 * Kevin Bretonnel Cohen, University of Colorado School of Medicine, USA 
 * Nigel Collier, University of Cambridge, UK 
 * Dina Demner-Fushman, US National Library of Medicine 
 * Patrick Gallinari, Université Pierre et Marie Curie, France
 * Filip Ginter, University of Turku, Finland 
 * Graciela Gonzalez, University of Pennsylvania, USA
 * Cyril Grouin, LIMSI - CNRS, France 
 * Antonio Jimeno Yepes, IBM, Melbourne Area, Australia
 * Aris Kosmopoulos, NCSR Demokritos, Greece
 * Halil Kilicoglu, US National Library of Medicine
 * Robert Leaman, US National Library of Medicine 
 * Zhiyong Lu, US National Library of Medicine 
 * Prodromes Malakasiotis, Athens University of Economics and Business, Greece
 * Timothy Miller, Children’s Hospital Boston, USA 
 * Makoto Miwa, Toyota Technological Institute, Japan 
 * Jim Mork, National Library of Medicine, USA
 * Danielle L Mowery, VA Salt Lake City Health Care System, USA
 * Yassine M'Rabet, US National Library of Medicine
 * Henning Müller, University of Applied Sciences, Switzerland
 * Claire Nédellec, INRA, France
 * Anastasios Nentidis, NCSR Demokritos, Athens, Greece 
 * Aurelie Neveol, LIMSI - CNRS, France 
 * Mariana Neves, Hasso Plattner Institute and University of Potsdam, Germany
 * Nhung Nguyen, The University of Manchester, UK
 * Naoaki Okazaki, Tohoku University, Japan 
 * Georgios Paliouras, NCSR Demokritos, Athens, Greece 
 * John Prager, Thomas J. Watson Research Center, IBM, USA
 * Sampo Pyysalo, University of Cambridge, UK 
 * Francisco J. Ribadas-Pena, University of Vigo, Spain
 * Fabio Rinaldi,  University of Zurich, Switzerland 
 * Kirk Roberts, The University of Texas Health Science Center at Houston, USA 
 * Angus Roberts, The University of Sheffield, UK 
 * Hagit Shatkay, University of Delaware, USA 
 * Pontus Stenetorp, University College London, UK
 * George Tsatsaronis, Technical University of Dresden, Germany
 * Karin Verspoor, The University of Melbourne, Australia 
 * Byron C. Wallace,  University of Texas at Austin, USA 
 * W John Wilbur, US National Library of Medicine 
 * Hai Zhao, Shanghai Jiao Tong University, Shanghai
 * Pierre Zweigenbaum, LIMSI - CNRS, France

Organizers: 

 Kevin Bretonnel Cohen, University of Colorado School of Medicine
 Dina Demner-Fushman, US National Library of Medicine
 Sophia Ananiadou, National Centre for Text Mining and University of Manchester, UK
 Jun-ichi Tsujii, National Institute of Advanced Industrial Science and Technology, Japan and University of Manchester, UK

ACL Anti-Harassment Policy

https://www.aclweb.org/adminwiki/index.php?title=Anti-Harassment_Policy

If you have any concerns or experience harassment or hostile behavior please contact Dina Demner-Fushman, Kevin Bretonnel Cohen or any current member of the ACL Executive Committee.




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