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Table 2 A comparison of motif finding by the adjacency matrix approach and FANMOD

From: Transcription factor and microRNA-regulated network motifs for cancer and signal transduction networks

approach motif AML Glioma Melanoma NSCLC PC RCC
Adjacency Matrix FFL 0 § 0 § 0 § 1 1 1
  bi-fan 1 § 1 § 1 1 0 § 0 §
FANMOD FFL 0 § 0 § 0 § 0 (FN) 0 (FN) 0 (FN)
  bi-fan 1 § 1 § 0 (FN) 0 (FN) 0 § 0 §
  Non bi-fan 2(2)* 1(1)* 0(0)* 2(2)* 3(3)* 3(1)*
  1. §given a fixed motif size, the italic and underlined fonts denote the results uisng adjacency matrix approach are consistent with those of FANMON, i.e. true positive or true negative events
  2. * the first number denotes the number of identified motifs, the number inside the parenthesis denotes the total number of motif pattern found in the cancer type