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» Extracting active pathways from gene expression data
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BMCBI
2010
106views more  BMCBI 2010»
13 years 7 months ago
A computational evaluation of over-representation of regulatory motifs in the promoter regions of differentially expressed genes
Background: Observed co-expression of a group of genes is frequently attributed to co-regulation by shared transcription factors. This assumption has led to the hypothesis that pr...
Guofeng Meng, Axel Mosig, Martin Vingron
BMCBI
2002
188views more  BMCBI 2002»
13 years 7 months ago
The limit fold change model: A practical approach for selecting differentially expressed genes from microarray data
Background: The biomedical community is developing new methods of data analysis to more efficiently process the massive data sets produced by microarray experiments. Systematic an...
David M. Mutch, Alvin Berger, Robert Mansourian, A...
BMCBI
2006
169views more  BMCBI 2006»
13 years 7 months ago
Beyond microarrays: Finding key transcription factors controlling signal transduction pathways
Background: Massive gene expression changes in different cellular states measured by microarrays, in fact, reflect just an "echo" of real molecular processes in the cell...
Alexander E. Kel, Nico Voss, Ruy Jauregui, Olga V....
BMCBI
2010
167views more  BMCBI 2010»
13 years 7 months ago
Bi-directional gene set enrichment and canonical correlation analysis identify key diet-sensitive pathways and biomarkers of met
Background: Currently, a number of bioinformatics methods are available to generate appropriate lists of genes from a microarray experiment. While these lists represent an accurat...
Melissa J. Morine, Jolene McMonagle, Sinead Toomey...
BMCBI
2008
179views more  BMCBI 2008»
13 years 7 months ago
Improving the power for detecting overlapping genes from multiple DNA microarray-derived gene lists
Background: In DNA microarray gene expression profiling studies, a fundamental task is to extract statistically significant genes that meet certain research hypothesis. Currently,...
Xutao Deng, Jun Xu, Charles Wang