Interaction Network for Acute Myeloid Leukemia (AML) Using the Cancer Genome Atlas (TCGA) Database
RNA-seq data from 128 samples was downloaded from the TCGA website (Nov 14, 2013) and normalized using DESEq. The samples were derived from sorted whole blood obtained from AML patients.
100 bootstraps of ARACNe were run using adaptive partitioning, p-value cut off of 1e-8, and full DPI. The regulator list that was used includes all the genes with GO annotation (Jan 2013) of transcriptional regulation or DNA binding.
Yishai Shimoni, Mariano Alvarez (2013)