McCabe12, Analysis of H3K27me3 in EZH2 mutant and wild type DLBCL cell lines.

Description

Analysis of H3K27me3 in 3 diffuse large B-cell lymphoma (DLBCL) cell lines: Pfeiffer, KARPAS-422, WSU-DLCL2 after treatment with an EZH2 inibitor (GSK126).

Source

Samples

From Human Feb. 2009 (GRCh37/hg19) Assembly.

ChIP-seq data:

Filename Description Feature GEO-ID
1 GSM1006149.sga Pfeiffer|H3K27me3 H3K27me3 GSM1006149
2 GSM1006150.sga Pfeiffer|Input Input GSM1006150
3 GSM1006151.sga KARPAS-422|H3K27me3 H3K27me3 GSM1006151
4 GSM1006152.sga KARPAS-422|Input Input GSM1006152
5 GSM1006153.sga WSU-DLCL2|H3K27me3 H3K27me3 GSM1006153
6 GSM1006154.sga WSU-DLCL2|Input Input GSM1006154

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: 7 Jan 2016