Table 3.

Validation rates for the three protocols—our protocol EP-DNN and the two recent algorithms that define the state-of-the-art, DEEP-EN and RFECS, where we keep the number of enhancer predictions approximately constant, at 100,000

H1 Prediction	# of Predictions	Validation rate (%)
EP-DNN	104,994	90.76
DEEP	105,030	86.43
RFECS	104,155	78.76
IMR90 Prediction	# of Predictions	Validation Rate (%)
EP-DNN	103,196	93.79
DEEP	103,751	93.28
RFECS	103,624	93.23