Clustering of genes into regulons using integrated modeling-COGRIM

Table 2 Regulatory response to transcription factor deletion

	Genome wide		B+/C+			B+/C-			B-/C+
	Mean	SD	Mean	SD	P value	Mean	SD	P value	Mean	SD	P value
Yap1	0.003	0.092	-0.174	0.23	7.24 × e^-03	0.043	0.13	0.158	-0.104	0.16	6.31 × e^-03
Swi5	0.004	0.06	-0.1	0.166	3.71 × e^-04	0.006	0.042	0.668	-0.019	0.03	1.01 × e^-03
Swi4	0.015	0.17	-0.124	0.24	1.23 × e^-07	0.058	0.178	0.242	-0.067	0.156	3.29 × e^-03
Gcn4	-0.007	0.07	-0.26	0.22	2.57 × e^-11	-0.002	0.032	0.421	-0.158	0.137	4.40 × e^-03

By conducting standard t-tests, the significance of the change in expression between knockout and wild-type was examined within each gene set (B+/C+, B-/C+, B+/C-) for four transcription factors for which expression, ChIP-ChIP, and deletion data are available. ChIP, chromatin immunoprecipitation; SD, standard deviation.

ISSN: 1474-760X