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Table 1 Average sizes of classes compared with random model R

From: On cycles in the transcription network of Saccharomyces cerevisiae

  IN-LSCC LSCC OUT-LSCC SIMPLE SSCC INT EXCP
  Luscombe
actual 9 25 68 38 2 0 2
average 17.1 42.3 43.2 33.8 1.00 2.8 2.8
p-value 0.02 0.025 0.001 0.062 0.6 0.097 0.58
  Yu
actual 20 63 114 77 5 6 5
average 32.5 69.5 102.8 69.6 0.44 6.3 4.2
p-value 0.001 0.002 0.020 0.22 0.01 0.32 0.34
  Balaji
actual 21 60 58 14 0 3 1
average 20.9 74.4 45.6 14.3 0.2 1.2 0.5
p-value 0.53 0.002 0.002 0.57 0.92 0.14 0.35
  1. We use Sscc to denote small cyclic scc's. The TFs that are neither in LSCC nor in its in- or out-components are classified according to MPL, the maximal path length for a path that includes a given TF; when MPL is 1 or 2, TF is in SIMPLE, if MPL is more than 3, TF is in EXCP, and if MPL is 3, we could make either decision, so here we inluded intermediate class INT.
  2. Random graphs were produced to get a uniform distribution among graphs in which TFs have the same in-and out- degrees as in the original network, without changing the TF-TT connections.