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Volume 16 Supplement 10

BioNLP Shared Task 2013: Part 1


Edited by Claire Nédellec, Jin-Dong Kim, Sampo Pyysalo, Sophia Ananiadou and Pierre Zweigenbaum

Publication of this supplement has not been supported by sponsorship. Information about the source of funding for publication charges can be found in the individual articles. Articles have undergone the journal's standard peer review process for supplements. The Supplement Editors declare that they have no competing interests.

BioNLP Shared Task 2013. Go to conference site.

Sofia, Bulgaria9 August 2013

  1. We present the two Bacteria Track tasks of BioNLP 2013 Shared Task (ST): Gene Regulation Network (GRN) and Bacteria Biotope (BB). These tasks were previously introduced in the 2011 BioNLP-ST Bacteria Track as Bac...

    Authors: Robert Bossy, Wiktoria Golik, Zorana Ratkovic, Dialekti Valsamou, Philippe Bessières and Claire Nédellec
    Citation: BMC Bioinformatics 2015 16(Suppl 10):S1
  2. Since their introduction in 2009, the BioNLP Shared Task events have been instrumental in advancing the development of methods and resources for the automatic extraction of information from the biomedical lite...

    Authors: Sampo Pyysalo, Tomoko Ohta, Rafal Rak, Andrew Rowley, Hong-Woo Chun, Sung-Jae Jung, Sung-Pil Choi, Jun'ichi Tsujii and Sophia Ananiadou
    Citation: BMC Bioinformatics 2015 16(Suppl 10):S2
  3. The third edition of the BioNLP Shared Task was held with the grand theme "knowledge base construction (KB)". The Genia Event (GE) task was re-designed and implemented in light of this theme. For its final rep...

    Authors: Jin-Dong Kim, Jung-jae Kim, Xu Han and Dietrich Rebholz-Schuhmann
    Citation: BMC Bioinformatics 2015 16(Suppl 10):S3
  4. The BioNLP Gene Regulation Task has attracted a diverse collection of submissions showcasing state-of-the-art systems. However, a principal challenge remains in obtaining a significant amount of recall. We arg...

    Authors: Thomas Provoost and Marie-Francine Moens
    Citation: BMC Bioinformatics 2015 16(Suppl 10):S4
  5. The acquisition of knowledge about relations between bacteria and their locations (habitats and geographical locations) in short texts about bacteria, as defined in the BioNLP-ST 2013 Bacteria Biotope task, de...

    Authors: Thomas Lavergne, Cyril Grouin and Pierre Zweigenbaum
    Citation: BMC Bioinformatics 2015 16(Suppl 10):S6
  6. Huge amounts of electronic biomedical documents, such as molecular biology reports or genomic papers are generated daily. Nowadays, these documents are mainly available in the form of unstructured free texts, ...

    Authors: Xiao Liu, Antoine Bordes and Yves Grandvalet
    Citation: BMC Bioinformatics 2015 16(Suppl 10):S8

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