Rat CNS Interactome (TF and coTFs)

Specifically, the following brain regions were microdissected and analyzed from nondependent and dependent alcohol self-administering rats as well as age-matched alcohol naive rats: (a) medial prefrontal cortex (MPF), (b) shell and (c) core NAc sub-regions, (d) central nucleus (CeA) and (e) basolateral nucleus of the amygdala (BLA), (f) dorsolateral and (g) ventral bed nucleus of the stria terminalis (BNST), and (h) ventral tegmental area (VTA).

Transcription factors (TFs) were defined as rat genes annotated as “transcription factor activity” in Gene Ontology and the list of TFs from TRANSFAC. This produced a final list of 898 TFs, from which 898 were present on the Cleaner-mapped expression profile. ARACNe was run using the adaptive partitioning algorithm, which selects the optimal kernel width for calculating the MI threshold of a specified p-value.