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» TopoGSA: network topological gene set analysis
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BMCBI
2010
126views more  BMCBI 2010»
13 years 3 months ago
PETALS: Proteomic Evaluation and Topological Analysis of a mutated Locus' Signaling
Background: Colon cancer is driven by mutations in a number of genes, the most notorious of which is Apc. Though much of Apc's signaling has been mechanistically identified o...
Gürkan Bebek, Vishal Patel, Mark R. Chance
BCB
2010
175views Bioinformatics» more  BCB 2010»
13 years 1 months ago
Gene set analysis using principal components
We present a new method for identifying gene sets associated with labeled samples, where the labels can be case versus control, or genotype differences. Existing approaches to thi...
Isa Kemal Pakatci, Wei Wang, Leonard McMillan
FBIT
2007
IEEE
14 years 18 days ago
Unsupervised Learning in Spectral Genome Analysis
The tree representation as a model for organismal evolution has been in use since before Darwin. However, with the recent unprecedented access to biomolecular data it has been dis...
Lutz Hamel, Neha Nahar, Maria S. Poptsova, Olga Zh...
BMCBI
2010
126views more  BMCBI 2010»
13 years 6 months ago
GeneBrowser 2: an application to explore and identify common biological traits in a set of genes
Background: The development of high-throughput laboratory techniques created a demand for computer-assisted result analysis tools. Many of these techniques return lists of genes w...
Joel Arrais, João Fernandes, João Pe...
BMCBI
2008
129views more  BMCBI 2008»
13 years 6 months ago
Motif-directed network component analysis for regulatory network inference
Background: Network Component Analysis (NCA) has shown its effectiveness in discovering regulators and inferring transcription factor activities (TFAs) when both microarray data a...
Chen Wang, Jianhua Xuan, Li Chen, Po Zhao, Yue Wan...