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Table 2 The number of genome-wide enhancers predicted by different methods and thresholds

From: Enhancer prediction in the human genome by probabilistic modelling of the chromatin feature patterns

   The threshold of 0.5 The best operating point or the threshold of 0.25 for RFECS The FPR 1% Threshold
Method Cell all without TSS threshold all without TSS threshold all without TSS
PREPRINT ML K562 27347 21238 0.51917 26423 20476 0.65472 20531 15531
PREPRINT Bayesian K562 36079 29747 0.35121 45472 37387 0.63137 29632 24553
RFECS K562 18956 15786 0.25 44522 35089    
ChromHMM Weak Enhancer K562 180471 176912       
ChromHMM Strong Enhancer K562 69019 66888       
PREPRINT ML GM12878 34448 29189 0.51917 33358 28246 0.65472 26274 22088
PREPRINT Bayesian GM12878 42480 38048 0.35121 52176 46446 0.63137 35447 31904
RFECS GM12878 20059 17746 0.25 58560 49699    
ChromHMM Weak Enhancer GM12878 178474 175487       
ChromHMM Strong Enhancer GM12878 64052 62599       
The thresholds estimated from the GM12878 test data         
PREPRINT ML GM12878    0.23675 58053 50012 0.68115 24934 20916
PREPRINT Bayesian GM12878    0.26116 60412 53681 0.81953 25401 23134