The utility of PAP to identify additional genes regulated by the same set of factors. (A) Methodology of identifying additional similarly regulated genes. Starting from a set of coregulated genes, several transcription factors may be identified and hypothesized to be the common transcription regulator of the input genes. Additional genes that may be regulated by the same factors may be searched using these transcription factors. (B) Fourteen previously reported liver-specific genes were used to test this methodology by leave-one-out cross-validation. In each round, 13 genes were analyzed by PAP and putative common transcription factors were determined. High scoring matrices were then used to score all of the human genes, and the rank of the verification gene is reported.
