Table 3 Identification of highly co-expressed genes among the regulatory targets of a TF. The expression coherence (EC) of B⁺R⁺, A _i and R _i are calculated. We then test whether the expression coherence of X _i is statistically higher than that of B⁺R^-, where X _i = A _i or R _i . The cumulative hypergeometric distribution is used to assign a p-value for rejecting the null hypothesis EC(X _i ) = EC(B⁺R⁺). Only those ${X^{\prime }}_{i}s$ that have p < 0.001 (i.e., -log₁₀ p > 3) are shown (see the Appendix for details). In addition, we show the most enriched MIPS functional category for each X _i .

From: Identifying regulatory targets of cell cycle transcription factors using gene expression and ChIP-chip data