Table 2. Identification of co-expression gene clusters in ES cell critical pathways.

Pathway	No of genes in the pathway	Co-expression cluster	No of genes in the cluster	Average r (correlation coefficient)	No of differentially expressed genes in the cluster (under-/over-expressed by B-MYB knockdown)
Cell cycle	116	C1	30	0.735	18/0
		C2	32	0.776	16/3
		K1	30	0.747	19/0
		K2	36	0.767	16/1
		O1	21	0.718(ctl)/0.738(kd)	11/0
		O2	19	0.838(ctl)/0.777(kd)	8/1
Apoptosis	78	C1	28	0.719	6/0
		C2	16	0.716	2/0
		K1	28	0.669	4/0
		O1	15	0.717(ctl)/0.816(kd)	2/0

C1–2 and K1–2 represent co-expression clusters identified in the ES cells of control and B-MYB knockdown, respectively. O1–2 represents conserved co-expression clusters cross the control and B-MYB knockdown. Ctl: ES cell control, kd: ES cells with B-MYB knockdown.