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Journal of Biomedical Semantics

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Volume 2 Supplement 5

Proceedings of the Fourth International Symposium on Semantic Mining in Biomedicine (SMBM)

Research

Edited by Nigel Collier, Udo Hahn, Sampo Pyysalo, Dietrich Rebholz-Schuhmann and Fabio Rinaldi

Fourth International Symposium on Semantic Mining in Biomedicine (SMBM).

Hinxton, UK25-26 October 2010

  1. Content type: Research

    Annotated reference corpora play an important role in biomedical information extraction. A semantic annotation of the natural language texts in these reference corpora using formal ontologies is challenging du...

    Authors: Robert Hoehndorf, Axel-Cyrille Ngonga Ngomo, Sampo Pyysalo, Tomoko Ohta, Anika Oellrich and Dietrich Rebholz-Schuhmann

    Citation: Journal of Biomedical Semantics 2011 2(Suppl 5):S1

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  2. Content type: Research

    We consider the task of automatically extracting DNA methylation events from the biomedical domain literature. DNA methylation is a key mechanism of epigenetic control of gene expression and implicated in many...

    Authors: Tomoko Ohta, Sampo Pyysalo, Makoto Miwa and Jun’ichi Tsujii

    Citation: Journal of Biomedical Semantics 2011 2(Suppl 5):S2

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  3. Content type: Research

    The extraction of complex events from biomedical text is a challenging task and requires in-depth semantic analysis. Previous approaches associate lexical and syntactic resources with ontologies for the semant...

    Authors: Jung-jae Kim and Dietrich Rebholz-Schuhmann

    Citation: Journal of Biomedical Semantics 2011 2(Suppl 5):S3

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  4. Content type: Research

    Event extraction following the GENIA Event corpus and BioNLP shared task models has been a considerable focus of recent work in biomedical information extraction. This work includes efforts applying event extr...

    Authors: Sampo Pyysalo, Tomoko Ohta and Jun’ichi Tsujii

    Citation: Journal of Biomedical Semantics 2011 2(Suppl 5):S5

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  5. Content type: Research

    This paper presents a new approach to exploit coreference information for extracting event-argument (E-A) relations from biomedical documents. This approach has two advantages: (1) it can extract a large numbe...

    Authors: Katsumasa Yoshikawa, Sebastian Riedel, Tsutomu Hirao, Masayuki Asahara and Yuji Matsumoto

    Citation: Journal of Biomedical Semantics 2011 2(Suppl 5):S6

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  6. Content type: Research

    The treatment of negation and hedging in natural language processing has received much interest recently, especially in the biomedical domain. However, open access corpora annotated for negation and/or specula...

    Authors: Veronika Vincze, György Szarvas, György Móra, Tomoko Ohta and Richárd Farkas

    Citation: Journal of Biomedical Semantics 2011 2(Suppl 5):S8

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  7. Content type: Research

    Micro-blogging services such as Twitter offer the potential to crowdsource epidemics in real-time. However, Twitter posts (‘tweets’) are often ambiguous and reactive to media trends. In order to ground user me...

    Authors: Nigel Collier, Nguyen Truong Son and Ngoc Mai Nguyen

    Citation: Journal of Biomedical Semantics 2011 2(Suppl 5):S9

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  8. Content type: Research

    Online news reports are increasingly becoming a source for event-based early warning systems that detect natural disasters. Harnessing the massive volume of information available from multilingual newswire pre...

    Authors: Nigel Collier

    Citation: Journal of Biomedical Semantics 2011 2(Suppl 5):S10

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  9. Content type: Research

    Competitions in text mining have been used to measure the performance of automatic text processing solutions against a manually annotated gold standard corpus (GSC). The preparation of the GSC is time-consumin...

    Authors: Dietrich Rebholz-Schuhmann, Antonio Jimeno Yepes, Chen Li, Senay Kafkas, Ian Lewin, Ning Kang, Peter Corbett, David Milward, Ekaterina Buyko, Elena Beisswanger, Kerstin Hornbostel, Alexandre Kouznetsov, René Witte, Jonas B Laurila, Christopher JO Baker, Cheng-Ju Kuo…

    Citation: Journal of Biomedical Semantics 2011 2(Suppl 5):S11

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