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    Results: 1 to 20 of 108

    1.

    An open-source framework for large-scale, flexible evaluation of biomedical text mining systems.

    Baumgartner WA Jr, Cohen KB, Hunter L.

    J Biomed Discov Collab. 2008 Jan 29;3:1.

    PMID:
    18230184
    [PubMed]
    Free PMC Article
    2.

    Evaluation of text-mining systems for biology: overview of the Second BioCreative community challenge.

    Krallinger M, Morgan A, Smith L, Leitner F, Tanabe L, Wilbur J, Hirschman L, Valencia A.

    Genome Biol. 2008;9 Suppl 2:S1. Epub 2008 Sep 1.

    PMID:
    18834487
    [PubMed - indexed for MEDLINE]
    Free PMC Article
    3.

    The GNAT library for local and remote gene mention normalization.

    Hakenberg J, Gerner M, Haeussler M, Solt I, Plake C, Schroeder M, Gonzalez G, Nenadic G, Bergman CM.

    Bioinformatics. 2011 Oct 1;27(19):2769-71. Epub 2011 Aug 3.

    PMID:
    21813477
    [PubMed - indexed for MEDLINE]
    Free PMC Article
    4.

    BioCreative III interactive task: an overview.

    Arighi CN, Roberts PM, Agarwal S, Bhattacharya S, Cesareni G, Chatr-Aryamontri A, Clematide S, Gaudet P, Giglio MG, Harrow I, Huala E, Krallinger M, Leser U, Li D, Liu F, Lu Z, Maltais LJ, Okazaki N, Perfetto L, Rinaldi F, Sætre R, Salgado D, Srinivasan P, Thomas PE, Toldo L, Hirschman L, Wu CH.

    BMC Bioinformatics. 2011 Oct 3;12 Suppl 8:S4.

    PMID:
    22151968
    [PubMed - in process]
    Free PMC Article
    5.

    A UIMA wrapper for the NCBO annotator.

    Roeder C, Jonquet C, Shah NH, Baumgartner WA Jr, Verspoor K, Hunter L.

    Bioinformatics. 2010 Jul 15;26(14):1800-1. Epub 2010 May 26.

    PMID:
    20505005
    [PubMed - indexed for MEDLINE]
    Free PMC Article
    6.

    BIOADI: a machine learning approach to identifying abbreviations and definitions in biological literature.

    Kuo CJ, Ling MH, Lin KT, Hsu CN.

    BMC Bioinformatics. 2009 Dec 3;10 Suppl 15:S7.

    PMID:
    19958517
    [PubMed - indexed for MEDLINE]
    Free PMC Article
    7.

    OpenDMAP: an open source, ontology-driven concept analysis engine, with applications to capturing knowledge regarding protein transport, protein interactions and cell-type-specific gene expression.

    Hunter L, Lu Z, Firby J, Baumgartner WA Jr, Johnson HL, Ogren PV, Cohen KB.

    BMC Bioinformatics. 2008 Jan 31;9:78.

    PMID:
    18237434
    [PubMed - indexed for MEDLINE]
    Free PMC Article
    8.

    Complex event extraction at PubMed scale.

    Björne J, Ginter F, Pyysalo S, Tsujii J, Salakoski T.

    Bioinformatics. 2010 Jun 15;26(12):i382-90.

    PMID:
    20529932
    [PubMed - indexed for MEDLINE]
    Free PMC Article
    10.

    Gene mention normalization and interaction extraction with context models and sentence motifs.

    Hakenberg J, Plake C, Royer L, Strobelt H, Leser U, Schroeder M.

    Genome Biol. 2008;9 Suppl 2:S14. Epub 2008 Sep 1.

    PMID:
    18834492
    [PubMed - indexed for MEDLINE]
    Free PMC Article
    11.

    Inter-species normalization of gene mentions with GNAT.

    Hakenberg J, Plake C, Leaman R, Schroeder M, Gonzalez G.

    Bioinformatics. 2008 Aug 15;24(16):i126-132.

    PMID:
    18689813
    [PubMed - indexed for MEDLINE]
    Free Article
    12.

    Automated recognition of malignancy mentions in biomedical literature.

    Jin Y, McDonald RT, Lerman K, Mandel MA, Carroll S, Liberman MY, Pereira FC, Winters RS, White PS.

    BMC Bioinformatics. 2006 Nov 7;7:492.

    PMID:
    17090325
    [PubMed - indexed for MEDLINE]
    Free PMC Article
    13.

    Gene name identification and normalization using a model organism database.

    Morgan AA, Hirschman L, Colosimo M, Yeh AS, Colombe JB.

    J Biomed Inform. 2004 Dec;37(6):396-410.

    PMID:
    15542014
    [PubMed - indexed for MEDLINE]
    14.

    Integration of gene normalization stages and co-reference resolution using a Markov logic network.

    Dai HJ, Chang YC, Tsai RT, Hsu WL.

    Bioinformatics. 2011 Sep 15;27(18):2586-94. Epub 2011 Jun 17.

    PMID:
    21685052
    [PubMed - indexed for MEDLINE]
    15.

    Various criteria in the evaluation of biomedical named entity recognition.

    Tsai RT, Wu SH, Chou WC, Lin YC, He D, Hsiang J, Sung TY, Hsu WL.

    BMC Bioinformatics. 2006 Feb 24;7:92.

    PMID:
    16504116
    [PubMed - indexed for MEDLINE]
    Free PMC Article
    16.

    Analysis of biological processes and diseases using text mining approaches.

    Krallinger M, Leitner F, Valencia A.

    Methods Mol Biol. 2010;593:341-82. Review.

    PMID:
    19957157
    [PubMed - indexed for MEDLINE]
    17.

    Soft tagging of overlapping high confidence gene mention variants for cross-species full-text gene normalization.

    Kuo CJ, Ling MH, Hsu CN.

    BMC Bioinformatics. 2011 Oct 3;12 Suppl 8:S6.

    PMID:
    22152021
    [PubMed - in process]
    Free PMC Article
    18.

    Corpus refactoring: a feasibility study.

    Johnson HL, Baumgartner WA Jr, Krallinger M, Cohen KB, Hunter L.

    J Biomed Discov Collab. 2007 Sep 13;2:4.

    PMID:
    17854502
    [PubMed]
    Free PMC Article
    19.

    Mayo clinical Text Analysis and Knowledge Extraction System (cTAKES): architecture, component evaluation and applications.

    Savova GK, Masanz JJ, Ogren PV, Zheng J, Sohn S, Kipper-Schuler KC, Chute CG.

    J Am Med Inform Assoc. 2010 Sep-Oct;17(5):507-13.

    PMID:
    20819853
    [PubMed - indexed for MEDLINE]
    Free PMC Article
    20.

    Comparing and combining chunkers of biomedical text.

    Kang N, van Mulligen EM, Kors JA.

    J Biomed Inform. 2011 Apr;44(2):354-60. Epub 2010 Nov 4.

    PMID:
    21056118
    [PubMed - indexed for MEDLINE]

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