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Table 3 Comparison of different methods for identifying functional peaks

From: Improving ChIP-seq peak-calling for functional co-regulator binding by integrating multiple sources of biological information

Method

Total number of peaks

Number of genes mapped

Intersection with SRC1-dependent genes

MACS p = 1E-10

1,286

684

44

MACS p = 1E-8

1,966

996

57

MACS p = 1E-5

4,678

2,054

123

supervised-NB(th = 0.8,1:2)

11,835

3,875

238

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BMC Genomics

ISSN: 1471-2164

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