histone_h3k4me1: A toy dataset of H3k4me1 peaks to test within SMITE

In SMITE: Significance-based Modules Integrating the Transcriptome and Epigenome

Description

A toy dataset of H3k4me1 peaks from liver ChIP-seq through the encode project. The file is a BED file.

Usage

data(histone_h3k4me1)

Format

A data frame with 75448 observations on the following 3 variables.

column1

a character vector specifying chromsome

column2

an integer vector specifying start

column3

an integer vector specifying end

Details

This is a BED file that specifices the consensus locations of three H3K4me1 ChIP-seq experiments performed on normal adult liver.

Value

A dataframe in BED format (chromosome, start, end).

Source

GSM669972, GSM621654, GSM537706

Roadmap Epigenomics Lister R, et al. Nature. 2009 Nov 19;462(7271):315-22 ENCODE Project Consortium. An integrated encyclopedia of DNA elements in the human genome. Nature. 2012 Sep 6;489(7414):57-74.

Examples

data(histone_h3k4me1)
head(h3k4me1)

SMITE documentation built on Nov. 8, 2020, 5:14 p.m.