Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Unclassified
Antigen
Unclassified

Cell type

Cell type Class
Breast
Cell type
T-47D
Primary Tissue
Breast
Tissue Diagnosis
Adenocarcinoma Ductal

Attributes by original data submitter

Sample

source_name
Breast cancer cell line
cell line
T47D
cell type
Breast cancer cell line
ambient o2 concentration
0.50%
duration of hypoxia
16 hours
tchip antibody
HIF1b (Novus NB100-110)

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

hg38

Number of total reads
28246204
Reads aligned (%)
96.6
Duplicates removed (%)
11.9
Number of peaks
2784 (qval < 1E-05)

hg19

Number of total reads
28246204
Reads aligned (%)
95.5
Duplicates removed (%)
12.0
Number of peaks
2395 (qval < 1E-05)

Base call quality data from DBCLS SRA