cutoff of 70% and a TF score threshold of 80% for human-rat comparison. The system uses the Grid computing paradigm [46] for the execution of computationally intensive steps involved in the TFBS finding process: genomic sequence alignment and TFBS searching. The Grid computational resources are provided by NorduGrid Virtual Organization (http://www.nordugrid.org/). Significance of differences in a number of TFBS between gene sets was evaluated with the Chi-Square test. 479 out of 531 differentially expressed genes identified by Liu et al. [14] were analyzed (Table supplemental (S) 1); 52 out of the 531 genes were not included because of missing annotations/sequences. Brain autopsy material used in the present and Liu et al. [14] studies was partially obtained from the same source (Tissue Resource Center, University of Sydney); only two of all subjects were analyzed in both studies. Sets of downregulated and upregulated genes were compared with each other, and with a control set of 1164 genes (Table S1). Control set did not include genes differentially expressed in the PFC of alcoholics.
