Sample information curated by ChIP-Atlas

Antigen

Antigen Class
RNA polymerase
Antigen
RNA polymerase II

Cell type

Cell type Class
Breast
Cell type
MDA-MB-231
Primary Tissue
Breast
Site of Extraction
Effusion, Pleural
Tissue Diagnosis
Adenocarcinoma

Attributes by original data submitter

Sample

source_name
DMSO_Pol2, MDA-MB-231
cell line
MDA-MB-231 breast cancer cells
chip antibody
RNA polymerase II 8WG16 (abcam, ab817, lot GR271062-1)
treatment
DMSO

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Cross-linked chromatin was sheared by sonication and immunoprecipitated with antibodies. DNA was purified by phenol/chloroform extraction and ethanol precipitation. NuGEN Ovation Ultralow Library Prep System kit

Sequencing Platform

instrument_model
Illumina HiSeq 2500

hg38

Number of total reads
40543938
Reads aligned (%)
97.5
Duplicates removed (%)
18.2
Number of peaks
17797 (qval < 1E-05)

hg19

Number of total reads
40543938
Reads aligned (%)
96.8
Duplicates removed (%)
19.1
Number of peaks
17792 (qval < 1E-05)

Base call quality data from DBCLS SRA