Genome Biology

official impact factor 6.89

This article is part of the supplement: The BioCreative II - Critical Assessment for Information Extraction in Biology Challenge

Linking genes to literature: text mining, information extraction, and retrieval applications for biology

Martin Krallinger*, Alfonso Valencia and Lynette Hirschman

Genome Biology 2008, 9(Suppl 2):S8 doi:10.1186/gb-2008-9-s2-s8

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Software   Open Access

Biblio-MetReS: A bibliometric network reconstruction application and server

Anabel Usié, Hiren Karathia, Ivan Teixidó, Joan Valls, Xavier Faus, Rui Alves, Francesc Solsona BMC Bioinformatics 2011, 12:387 (5 October 2011)

Research   Open Access

Simple and efficient machine learning frameworks for identifying protein-protein interaction relevant articles and experimental methods used to study the interactions

Shashank Agarwal, Feifan Liu, Hong Yu BMC Bioinformatics 2011, 12(Suppl 8):S10 (3 October 2011)

Software   Open Access Highly Accessed

Integrating GPCR-specific information with full text articles

Bas Vroling, David Thorne, Philip McDermott, Teresa K Attwood, Gert Vriend, Steve Pettifer BMC Bioinformatics 2011, 12:362 (12 September 2011)

Research   Open Access

A formalized description of the standard human variant nomenclature in Extended Backus-Naur Form

Jeroen F J Laros, André Blavier, Johan T den Dunnen, Peter E M Taschner BMC Bioinformatics 2011, 12(Suppl 4):S5 (5 July 2011)

Methodology article   Open Access Highly Accessed

EnvMine: A text-mining system for the automatic extraction of contextual information

Javier Tamames, Victor de Lorenzo BMC Bioinformatics 2010, 11:294 (1 June 2010)

Software   Open Access Highly Accessed

Word add-in for ontology recognition: semantic enrichment of scientific literature

J Lynn Fink, Pablo Fernicola, Rahul Chandran, Savas Parastatidis, Alex Wade, Oscar Naim, Gregory B Quinn, Philip E Bourne BMC Bioinformatics 2010, 11:103 (24 February 2010)

Research article   Open Access Highly Accessed

LINNAEUS: A species name identification system for biomedical literature

Martin Gerner, Goran Nenadic, Casey M Bergman BMC Bioinformatics 2010, 11:85 (11 February 2010)

Research article   Open Access

Text mining and manual curation of chemical-gene-disease networks for the Comparative Toxicogenomics Database (CTD)

Thomas C Wiegers, Allan Davis, K Bretonnel Cohen, Lynette Hirschman, Carolyn J Mattingly BMC Bioinformatics 2009, 10:326 (8 October 2009)

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Text-mining of PubMed abstracts by natural language processing to create a public knowledge base on molecular mechanisms of bacterial enteropathogens

Sam Zaremba, Mila Ramos-Santacruz, Thomas Hampton, Panna Shetty, Joel Fedorko, Jon Whitmore, John M Greene, Nicole T Perna, Jeremy D Glasner, Guy Plunkett, Matthew Shaker, David Pot BMC Bioinformatics 2009, 10:177 (10 June 2009)