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Volume 13 Supplement 11

Selected articles from the BioNLP Shared Task 2011

Research

Edited by Jin-Dong Kim, Sampo Pyysalo, Claire Nédellec, Sophia Ananiadou and Jun'ichi Tsujii

BioNLP Shared Task 2011. Go to conference site.

Portland, OR, USA23-24 June 2011

  1. The Genia task, when it was introduced in 2009, was the first community-wide effort to address a fine-grained, structural information extraction from biomedical literature. Arranged for the second time as one ...

    Authors: Jin-Dong Kim, Ngan Nguyen, Yue Wang, Jun'ichi Tsujii, Toshihisa Takagi and Akinori Yonezawa
    Citation: BMC Bioinformatics 2012 13(Suppl 11):S1
    Content type: Proceedings Published on:

  2. We present the preparation, resources, results and analysis of three tasks of the BioNLP Shared Task 2011: the main tasks on Infectious Diseases (ID) and Epigenetics and Post-translational Modifications (EPI),...

    Authors: Sampo Pyysalo, Tomoko Ohta, Rafal Rak, Dan Sullivan, Chunhong Mao, Chunxia Wang, Bruno Sobral, Jun'ichi Tsujii and Sophia Ananiadou
    Citation: BMC Bioinformatics 2012 13(Suppl 11):S2
    Content type: Proceedings Published on:

  3. We present the BioNLP 2011 Shared Task Bacteria Track, the first Information Extraction challenge entirely dedicated to bacteria. It includes three tasks that cover different levels of biological knowledge. Th...

    Authors: Robert Bossy, Julien Jourde, Alain-Pierre Manine, Philippe Veber, Erick Alphonse, Maarten van de Guchte, Philippe Bessières and Claire Nédellec
    Citation: BMC Bioinformatics 2012 13(Suppl 11):S3
    Content type: Proceedings Published on:

  4. We present a system for extracting biomedical events (detailed descriptions of biomolecular interactions) from research articles, developed for the BioNLP'11 Shared Task. Our goal is to develop a system easily...

    Authors: Jari Björne, Filip Ginter and Tapio Salakoski
    Citation: BMC Bioinformatics 2012 13(Suppl 11):S4
    Content type: Proceedings Published on:

  6. Text mining tools have gained popularity to process the vast amount of available research articles in the biomedical literature. It is crucial that such tools extract information with a sufficient level of det...

    Authors: Sofie Van Landeghem, Jari Björne, Thomas Abeel, Bernard De Baets, Tapio Salakoski and Yves Van de Peer
    Citation: BMC Bioinformatics 2012 13(Suppl 11):S6
    Content type: Proceedings Published on:

  7. In recent years, biological event extraction has emerged as a key natural language processing task, aiming to address the information overload problem in accessing the molecular biology literature. The BioNLP ...

    Authors: Halil Kilicoglu and Sabine Bergler
    Citation: BMC Bioinformatics 2012 13(Suppl 11):S7
    Content type: Proceedings Published on:

  9. We explore techniques for performing model combination between the UMass and Stanford biomedical event extraction systems. Both sub-components address event extraction as a structured prediction problem, and u...

    Authors: David McClosky, Sebastian Riedel, Mihai Surdeanu, Andrew McCallum and Christopher D Manning
    Citation: BMC Bioinformatics 2012 13(Suppl 11):S9
    Content type: Proceedings Published on:
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BMC Bioinformatics

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