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Table 2 Numbers of significant proximal HVRs identified by applying different parameter estimation methods with various cutoffs of the BH-adjusted p-value. The original method refers to the moment matching method used by MAnorm2, and the other method corresponds to the default settings of HyperChIP

From: HyperChIP: identification of hypervariable signals across ChIP-seq or ATAC-seq samples

Parameter estimation Data set Number of significant proximal HVRs
0.01 0.05 0.1
Original H3K27ac ChIP-seq 0 2 2
ATAC-seq 5 8 10
Pol II ChIP-seq 0 0 0
Lower 10% + winsorization H3K27ac ChIP-seq 237 789 1442
ATAC-seq 1050 2171 3197
Pol II ChIP-seq 303 990 1546