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Table 3 Comparison between CrmMiner predictions and putative heart enhancers (PHEs)

From: Predicting tissue specific cis-regulatory modules in the human genome using pairs of co-occurring motifs

n CNEs PCRMs Expected Enrichment (fold) Z-scores
0 91 50 13.1 3.8 11.4
10 96 56 13.9 4.0 12.6
20 108 58 6.4 7.5 21.7
30 118 69 9.9 7.0 20.1
40 129 64 11.1 5.8 17.1
60 150 63 10.4 6.1 17.3
80 164 79 10.6 7.5 22.2
100 177 48 6.7 7.2 16.7
All 205 28 5.9 4.7 9.4
  1. The PHEs were obtained by a supervised-learning method [9]. Columns CNEs and PCRMs display the number of overlaps between the CNEs and PHEs, and the PCRMs (putative CRMs) and PHEs, respectively. The expected number of overlaps between the CNEs and the PHEs was calculated experimentally in 10000 trials. In each trial, a set was randomly selected from the input CNEs. These CNEs are located in the 154 heart-specific gene loci and comprise the mixed sets that CrmMiner analysed. The number of CNEs in a random set is the same as the number of the PCRMs. Then, the overlaps between a random set and the PHEs were counted. The expected number is the average overlap in the 10000 trials. The Z-scores were based on the distribution of the overlaps in the 10000 trials. The P-values associated with the nine Z-scores are 0.