Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
HIF1A

Cell type

Cell type Class
Liver
Cell type
Hep G2
Primary Tissue
Liver
Tissue Diagnosis
Carcinoma Hepatocellular

Attributes by original data submitter

Sample

source_name
hepatocellular cancer cell line
cell line
HepG2
tissue
hepatocellular cancer cell line
degree of hypoxia
0.5%
duration of hypoxia
16 hours
chip antibody
HIF1a (PM14)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Chromatin immunoprecipitation (ChIP) experiments were performed using antibodies directed against HIF-1a (rabbit polyclonal, PM14), HIF-2a (rabbit polyclonal, PM9), or HIF-1b (rabbit polyclonal, Novus Biologicals, NB100-110). Libraries were prepared from immunoprecipitated chromatin using the Illumina ChIP-Seq kit All ChIP-seq experiments were performed in duplicate in accordance with ENCODE consortium guidelines

Sequencing Platform

instrument_model
Illumina HiSeq 4000

hg19

Number of total reads
30258270
Reads aligned (%)
150.2
Duplicates removed (%)
19.3
Number of peaks
3844 (qval < 1E-05)

hg38

Number of total reads
30258270
Reads aligned (%)
152.3
Duplicates removed (%)
19.0
Number of peaks
4212 (qval < 1E-05)

Base call quality data from DBCLS SRA