SRX5493763
GSM3660485: S176 VEH ER; Homo sapiens; ChIP-Seq

Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
ESR1

Cell type

Cell type Class
Breast
Cell type
Breast cancer cells
NA
NA

Attributes by original data submitter

Sample

source_name
Patient derived xenograft, breast cancer
tissue
tumor tissue
chip antibody
ER
chip antibody vendor
Santa Cruz Biotechnology, Thermo

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Tumors were harvested, flash frozen and sectioned. Chromatin was extracted using an SDS based sonication protocol and immunoprecipitated. DNA libraries were prepared using Swift Accel-NGS 2S Plus kit in an automated platform

Sequencing Platform

instrument_model
NextSeq 500

Where can I get the processing logs?

Read processing pipeline log

hg38

Number of total reads
21646968
Reads aligned (%)
85.8
Duplicates removed (%)
23.5
Number of peaks
3347 (qval < 1E-05)

hg19

Number of total reads
21646968
Reads aligned (%)
85.3
Duplicates removed (%)
23.8
Number of peaks
3353 (qval < 1E-05)

Base call quality data from DBCLS SRA