Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
BRCA1

Cell type

Cell type Class
Lung
Cell type
IMR-90
Primary Tissue
Lung
Tissue Diagnosis
Normal

Attributes by original data submitter

Sample

source_name
Fetal lung fibroblasts IMR90
cell line
IMR90
cell type
Human fetal lung fibroblasts
treatment agent
6μM Etoposide for 6 hours
chip antibody
BRCA1 (Santa Cruz, Cat# sc-646)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Genomic DNA was extracted from sub-confluent dishes, fixed and sheared to an average length of 200-1500bp. 10% of the samples from each cell line were pooled to form the Input. RNAPII/BRCA1 antibody was used for immunoprecipitation. ChIP DNA was purified, sheared further to an average length of 350 bp and sequenced after library construction. Sequencing library was prepared using standard Illumina protocols

Sequencing Platform

instrument_model
Illumina HiSeq 3000

hg19

Number of total reads
19118821
Reads aligned (%)
83.8
Duplicates removed (%)
16.0
Number of peaks
449 (qval < 1E-05)

hg38

Number of total reads
19118821
Reads aligned (%)
84.0
Duplicates removed (%)
15.8
Number of peaks
400 (qval < 1E-05)

Base call quality data from DBCLS SRA