Author: Chang, Stewart T.; Sova, Pavel; Peng, Xinxia; Weiss, Jeffrey; Law, G. Lynn; Palermo, Robert E.; Katze, Michael G.
Title: Next-Generation Sequencing Reveals HIV-1-Mediated Suppression of T Cell Activation and RNA Processing and Regulation of Noncoding RNA Expression in a CD4(+) T Cell Line Document date: 2011_9_20
ID: zyzgk2z3_40
Snippet: Interactions between DE genes were identified using Ingenuity Pathways Analysis (IPA) software (Ingenuity Systems, Redwood City, CA). Networks were generated within IPA based on direct, literature-curated interactions. Subsets of genes were selected for input into IPA based on DE gene overlaps with DAVID annotation clusters. Heat maps were generated using the R package gplots. Comparisons to published networks of protein-protein interaction (PPI).....
Document: Interactions between DE genes were identified using Ingenuity Pathways Analysis (IPA) software (Ingenuity Systems, Redwood City, CA). Networks were generated within IPA based on direct, literature-curated interactions. Subsets of genes were selected for input into IPA based on DE gene overlaps with DAVID annotation clusters. Heat maps were generated using the R package gplots. Comparisons to published networks of protein-protein interaction (PPI) data were made using Cytoscape (49) .
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