Euskirchen 2011, Genome-wide profile of the SWI/SNF chromatin remodeling complex

Chip-Seq against BAF170, BAF155, Brg1 and Ini1 proteins of the chromatin remodelling complex SWI/SNF in HeLa S3 cells grown under normal conditions.

• Raw data was downloaded from GEO series GSE24397
• Input file format: SRA

From H. sapiens (Feb 2009 GRCh37/hg19).

ChIP-seq data:

	Filename	Description	Feature	GEO-ID
1	GSM601401.sga	HeLa S3 cells|BAF170	BAF170	GSM601401
2	GSM601400.sga	HeLa S3 cells|BAF155	BAF155	GSM601400
3	GSM601399.sga	HeLa S3 cells|Brg1	Brg1	GSM601399
4	GSM601398.sga	HeLa S3 cells|Ini1	Ini1	GSM601398

SRA data were mapped to the hg19 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).

• Euskirchen GM, Auerbach RK, Davidov E, Gianoulis TA et al.
  Diverse roles and interactions of the SWI/SNF chromatin remodeling complex revealed using global approaches. PLoS Genet 2011 Mar;7(3):e1002008. PMID: 21408204
• GEO : GSE24397 Genome-wide profile of the SWI/SNF chromatin remodeling complex.