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

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

Factor	Number of peaks			Genomic location (fraction of peaks)^a
	P value cutoff^b			Promoter^c	Proximal promoter^d	3 Prime^e	Exon	Intron	Upstream^f	Downstream^g	Intergenic^h
	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

^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.
^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.
^c+/−500 bp from the transcription start site (TSS).
^d+/−2 kb from the TSS.
^e+/−500 nucleotides from the end of the transcript.
^f–2 kb to −10 kb upstream of the TSS.
^g+2 kb to +10 kb from the end of the transcript.
^h>10 kb from any annotated gene.

ISSN: 2044-5040