Do 2012, Mutant p53 and IgG in MDAH087 fibroblast cell line

Analysis of p53 and IgG in the Li-Fraumeni cell line MDAH087, which expresses only the R248W mtp53 protein (Bischoff et al. 1990).

• Raw data was downloaded from: FTP : SRR448
  Input file format: SRA

From H. sapiens (March 2006 NCBI36/hg18).

ChIP-seq data:

	Filename	Description	Feature	GEO-ID
1	GSM900167_MDAH087_IgG.sga	MDAH087 IgG	IgG	GSM900167
2	GSM900168_MDAH087_p53.sga	MDAH087 p53	p53	GSM900168

FASTQ files were extracted from SRA files using fastq-dump (SRA toolkit v2.5.0) and mapped to hg18 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).

• Do PM, Varanasi L, Fan S, Li C, Kubacka I, Newman V, Chauhan K, Daniels SR, Boccetta M, Garrett MR, Li R, Martinez LA
  Mutant p53 cooperates with ETS2 to promote etoposide resistance. Genes Dev. 2012 Apr 15;26(8):830-45. doi: 10.1101/gad.181685.111. 22508727
• GEO series GSE36749: Mutant p53 cooperates with ETS2 to promote etoposide resistance [ChIP-Seq]