Schodel 2018, HIF binding sites in MCF-7 breast cancer cells.

ChIP-Seq analysis of HIF-1 alpha, HIF-2 alpha, and HIF-1 beta binding in MCF-7 breast cancer cells.

• Raw data was downloaded from: GEO
• Input file format: TXT
• Download date: 12-2-2018

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

ChIP-seq data:

	Filename	Description	Feature	GEO-ID
1	GSM700944.sga	MCF-7|HIF-1 alpha||	HIF1a	GSM700944
2	GSM700947.sga	MCF-7|HIF-1 beta||	HIF1b	GSM700947
3	GSM700945.sga	MCF-7|HIF-2 alpha||	HIF2a	GSM700945
4	GSM700946.sga	MCF-7|HIF-1 alpha control||	control	GSM700946
5	GSM700948.sga	MCF-7|HIF-1 beta control||	control	GSM700948

TXT file (Illumina output files) were converted into BED using an ad-hoc perl script. BED to SGA conversion was carried out using bed2sga.pl (ChIP-Seq v. 1.5.3).

• Schödel J, Oikonomopoulos S, Ragoussis J, Pugh CW, Ratcliffe PJ, Mole DR
  High-resolution genome-wide mapping of HIF-binding sites by ChIP-seq. Blood. 2011 Jun 9;117(23):e207-17. doi: 10.1182/blood-2010-10-314427. Epub 2011 Mar 29. 21447827
• GEO series GSE28352: High resolution genome-wide mapping of HIF binding sites by ChIP-seq