SRX3923520
GSM3092509: JC4243 MCF-7 vehicle input; Homo sapiens; ChIP-Seq

Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

Cell type

Cell type Class
Breast
Cell type
MCF-7
Primary Tissue
Breast
Site of Extraction
Pleura
Tissue Diagnosis
Adenocarcinoma

Attributes by original data submitter

Sample

source_name
MCF-7_vehicle_input
cell line
MCF7
cell type
breast cancer cell line
chip antibody
none (input)
treatment
hormone-deprived cells treated with vehicle

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
ChIPseq, Schmidt et al, 2009. PMID: 19275950 phenol chloroform isoamyl DNA extraction ChIPseq, Schmidt et al, 2009. PMID: 19275939

Sequencing Platform

instrument_model
Illumina HiSeq 4000

Where can I get the processing logs?

Read processing pipeline log

hg38

Number of total reads
65798860
Reads aligned (%)
99.3
Duplicates removed (%)
27.5
Number of peaks
1389 (qval < 1E-05)

hg19

Number of total reads
65798860
Reads aligned (%)
98.5
Duplicates removed (%)
28.9
Number of peaks
1470 (qval < 1E-05)

Base call quality data from DBCLS SRA