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Table 2 Regulatory response to transcription factor deletion

From: Clustering of genes into regulons using integrated modeling-COGRIM

  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
  1. 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.