Tsai 2010, TRIM24, estrogen receptor and H3K4me2 in estrogen-treated and -untreated MCF7 cells

Description

ChIP-seq against ER, TRIM24 and H3K4me2 in estrogen treated and untreated MCF7 cells. Includes total genomic DNA sample as control.

Source

Samples

From Human Mar. 2006 (GRCh36/hg18) Assembly.

ChIP-seq data:

Filename Description Feature GEO-ID
1 GSM594602.sga MCF7 ER treated ER GSM594602
2 GSM594603.sga MCF7 ER untreated ER GSM594603
3 GSM594604.sga MCF7 T24 treated T24 GSM594604
4 GSM594605.sga MCF7 T24 untreated T24 GSM594605
5 GSM594606.sga MCF7 H3K4me2 treated H3K4me2 GSM594606
6 GSM594607.sga MCF7 H3K4me2 untreated H3K4me2 GSM594607
7 GSM594608.sga total-DNA total-DNA GSM594608

Technical Notes

FASTQ files were extracted from SRA files using fastq-dump (SRA toolkit v2.5.0) and mapped to the genome using Bowtie v0.12.8. SAM files were then converted into bam using samtools v0.1.14 and to bed using bamToBed v2.12.0 (bedtools). SGA conversion was carried out using bed2sga.pl (ChIP-Seq v. 1.5.2).

References

Last update: 24 Feb 2016