Genome Biology

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Mining microarray expression data by literature profiling

Damien Chaussabel* and Alan Sher

Genome Biology 2002, 3:research0055-research0055.16 doi:10.1186/gb-2002-3-10-research0055

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BioMed Central: 10 citations

Proceedings   Open Access

Disclosing ambiguous gene aliases by automatic literature profiling

Roney S Coimbra, Dana E Vanderwall, Guilherme C Oliveira BMC Genomics 2010, 11(Suppl 5):S3 (22 December 2010)

Research article   Open Access

Identifying overrepresented concepts in gene lists from literature: a statistical approach based on Poisson mixture model

Xin He, Moushumi Sarma, Xu Ling, Brant Chee, Chengxiang Zhai, Bruce Schatz BMC Bioinformatics 2010, 11:272 (20 May 2010)

Research article   Open Access Highly Accessed

Methodology capture: discriminating between the "best" and the rest of community practice

James M Eales, John W Pinney, Robert D Stevens, David L Robertson BMC Bioinformatics 2008, 9:359 (1 September 2008)

Software   Open Access Highly Accessed

GenCLiP: a software program for clustering gene lists by literature profiling and constructing gene co-occurrence networks related to custom keywords

Zhong-Xi Huang, Hui-Yong Tian, Zhen-Fu Hu, Yi-Bo Zhou, Jin Zhao, Kai-Tai Yao BMC Bioinformatics 2008, 9:308 (13 July 2008)

Research article   Open Access

Text-derived concept profiles support assessment of DNA microarray data for acute myeloid leukemia and for androgen receptor stimulation

Rob Jelier, Guido Jenster, Lambert CJ Dorssers, Bas J Wouters, Peter JM Hendriksen, Barend Mons, Ruud Delwel, Jan A Kors BMC Bioinformatics 2007, 8:14 (18 January 2007)

Methodology article   Open Access Highly Accessed

A literature-based similarity metric for biological processes

Monica Chagoyen, Pedro Carmona-Saez, Concha Gil, Jose M Carazo, Alberto Pascual-Montano BMC Bioinformatics 2006, 7:363 (26 July 2006)

Methodology article   Open Access Highly Accessed

Combining evidence, biomedical literature and statistical dependence: new insights for functional annotation of gene sets

Marc Aubry, Annabelle Monnier, Celine Chicault, Marie de Tayrac, Marie-Dominique Galibert, Anita Burgun, Jean Mosser BMC Bioinformatics 2006, 7:241 (4 May 2006)

Methodology article   Open Access Highly Accessed

Discovering semantic features in the literature: a foundation for building functional associations

Monica Chagoyen, Pedro Carmona-Saez, Hagit Shatkay, Jose M Carazo, Alberto Pascual-Montano BMC Bioinformatics 2006, 7:41 (26 January 2006)

Report   Open Access

A sentence sliding window approach to extract protein annotations from biomedical articles

Martin Krallinger, Maria Padron, Alfonso Valencia BMC Bioinformatics 2005, 6(Suppl 1):S19 (24 May 2005)

Software   Open Access

TXTGate: profiling gene groups with text-based information

Patrick Glenisson, Bert Coessens, Steven Van Vooren, Janick Mathys, Yves Moreau, Bart De Moor Genome Biology 2004, 5:R43 (28 May 2004)

This study implemented a framework called TXTGate that combines literature indices of selected public biological resources in a flexible text-mining system designed towards the analysis of groups of genes.