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Table 1 Number and genomic location of musculin and MyoD ChIP-seq peaks in RD cells

From: Genome-wide binding of the basic helix-loop-helix myogenic inhibitor musculin has substantial overlap with MyoD: implications for buffering activity

Factor

Number of peaks

Genomic location (fraction of peaks)a

 

P value cutoffb

Promoterc

Proximal promoterd

3 Primee

Exon

Intron

Upstreamf

Downstreamg

Intergenich

 

10-5

10-7

10-10

        

Musculin

54901

39036

25688

0.165

0.231

0.029

0.204

0.563

0.209

0.170

0.423

MyoD [21]

50320

35203

24501

0.110

0.175

0.027

0.154

0.560

0.187

0.164

0.405

  1. aThe fraction of MyoD and musculin peaks found in each listed type of genomic region are given. Note that categories are not mutually exclusive, and a single peak may be included in multiple categories.
  2. bThree P value cutoffs were used to evaluate whether ChIP-seq reads are considered a ‘peak’ and included in the count of the total number of peaks.
  3. c+/−500 bp from the transcription start site (TSS).
  4. d+/−2 kb from the TSS.
  5. e+/−500 nucleotides from the end of the transcript.
  6. f–2 kb to −10 kb upstream of the TSS.
  7. g+2 kb to +10 kb from the end of the transcript.
  8. h>10 kb from any annotated gene.