Theme discovery from gene lists for identification and viewing of multiple functional groups
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* Corresponding author: Petri Törönen petri.toronen@helsinki.fi
BMC Bioinformatics 2005, 6:162 doi:10.1186/1471-2105-6-162
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BioMed Central: 10 citations
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Proceedings
Elina Tjioe, Michael W Berry, Ramin Homayouni BMC Bioinformatics 2010, 11(Suppl 6):S14 (7 October 2010) |
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Software
A flexible R package for nonnegative matrix factorization Renaud Gaujoux, Cathal Seoighe BMC Bioinformatics 2010, 11:367 (2 July 2010) |
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Methodology article
Generation of Gene Ontology benchmark datasets with various types of positive signal Petri Törönen, Petri Pehkonen, Liisa Holm BMC Bioinformatics 2009, 10:319 (7 October 2009) |
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Methodology article
Construction and use of gene expression covariation matrix Jérôme Hennetin, Petri Pehkonen, Michel Bellis BMC Bioinformatics 2009, 10:214 (13 July 2009) |
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Methodology article
Assessment of protein set coherence using functional annotations Monica Chagoyen, Jose M Carazo, Alberto Pascual-Montano BMC Bioinformatics 2008, 9:444 (20 October 2008) A novel approach to evaluating the homogeneity of protein sets on the basis of the global similarity of their Gene Ontology functional annotations compliments methods for validating microarray clusters and protein-protein interaction networks.
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Software
CROPPER: a metagene creator resource for cross-platform and cross-species compendium studies Jussi Paananen, Markus Storvik, Garry Wong BMC Bioinformatics 2006, 7:418 (22 September 2006) |
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Software
bioNMF: a versatile tool for non-negative matrix factorization in biology Alberto Pascual-Montano, Pedro Carmona-Saez, Monica Chagoyen, Francisco Tirado, Jose M Carazo, Roberto D Pascual-Marqui BMC Bioinformatics 2006, 7:366 (28 July 2006) |
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Methodology article
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) |
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Methodology article
Biclustering of gene expression data by non-smooth non-negative matrix factorization Pedro Carmona-Saez, Roberto D Pascual-Marqui, F Tirado, Jose M Carazo, Alberto Pascual-Montano BMC Bioinformatics 2006, 7:78 (17 February 2006) |
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Methodology article
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) |