Pathway level analysis of gene expression using singular value decomposition
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* Corresponding author: Thomas B Kepler kepler@duke.edu
BMC Bioinformatics 2005, 6:225 doi:10.1186/1471-2105-6-225
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Proceedings
Junjie Su, Byung-Jun Yoon, Edward R Dougherty BMC Bioinformatics 2010, 11(Suppl 6):S8 (7 October 2010) |
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Method
Reuben Thomas, Julia M Gohlke, Geffrey F Stopper, Frederick M Parham, Christopher J Portier Genome Biology 2009, 10:R44 (24 April 2009) A method is proposed that finds enriched pathways relevant to a studied condition, using molecular and network data. |
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Research
Dongxiao Zhu BMC Bioinformatics 2009, 10(Suppl 1):S54 (30 January 2009) |
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Methodology article
Gene set analyses for interpreting microarray experiments on prokaryotic organisms Nathan L Tintle, Aaron A Best, Matthew DeJongh, Dirk Van Bruggen, Fred Heffron, Steffen Porwollik, Ronald C Taylor BMC Bioinformatics 2008, 9:469 (5 November 2008) |
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Methodology article
Testing gene set enrichment for subset of genes: Sub-GSE Xiting Yan, Fengzhu Sun BMC Bioinformatics 2008, 9:362 (2 September 2008) |
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Research
MCM-test: a fuzzy-set-theory-based approach to differential analysis of gene pathways Lily R Liang, Vinay Mandal, Yi Lu, Deepak Kumar BMC Bioinformatics 2008, 9(Suppl 6):S16 (28 May 2008) |
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Methodology article
Comparative evaluation of gene-set analysis methods Qi Liu, Irina Dinu, Adeniyi J Adewale, John D Potter, Yutaka Yasui BMC Bioinformatics 2007, 8:431 (7 November 2007) |
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Research article
A framework for significance analysis of gene expression data using dimension reduction methods Lars Gidskehaug, Endre Anderssen, Arnar Flatberg, Bjørn K Alsberg BMC Bioinformatics 2007, 8:346 (18 September 2007) |
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Research
David M Levine, David R Haynor, John C Castle, Sergey B Stepaniants, Matteo Pellegrini, Mao Mao, Jason M Johnson Genome Biology 2006, 7:R93 (17 October 2006) A comparison of five different measures of pathway expression and a public map of pathway expression in human tissues are presented. |