Tiana 2018, HIF binding sites in HUVEC cells exposed to hypoxia.
Genome-wide maps of components of HIF alpha (HIF1A and EPAS1)
and HIF beta (ARNT) in HUVE cells exposed to hypoxia.
- Raw data was downloaded from: GEO
- Input file format: SRA
- Download date: 5-2-2018
From H. sapiens (Feb 2009 GRCh37/hg19).
FASTQ files were extracted from SRA files using fastq-dump
toolkit v2.5.0) and mapped to the genome
using Bowtie2 v0.12.8. SAM
files were then converted into bam
using samtools v0.1.14
and to bed using bamToBed v2.12.0
conversion was carried out using bed2sga.pl
(ChIP-Seq v. 1.5.3).
Tiana M, Acosta-Iborra B, Puente-Santamaría L, Hernansanz-Agustin P, Worsley-Hunt R, Masson N, García-Rio F, Mole D, Ratcliffe P, Wasserman WW, Jimenez B, Del Peso L
The SIN3A histone deacetylase complex is required for a complete transcriptional response to hypoxia.
Nucleic Acids Res. 2018 Jan 9;46(1):120-133. doi: 10.1093/nar/gkx951.
Genome-wide mapping of HIF binding sites by ChIP-seq in HUVEC cells exposed to hypoxia
Genome browser viewable files
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