Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
MED1

Cell type

Cell type Class
Breast
Cell type
BT-474
Primary Tissue
Breast
Site of Extraction
Soft Tissue
Tissue Diagnosis
Adenocarcinoma Ductal

Attributes by original data submitter

Sample

source_name
BT474m1 HER2+ breast carcinoma cell line
culture media
RPMI supplemented with 10% FBS
library preparation kit
KAPA Hyper Prep
treatment
treated with DMSO for 24h
chip antibody
MED1/CRSP1/TRAP220 Bethyl Laboratories A300-793A100

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Whole cell lysates were sonicated resulting in an average chromatin fragment size of ~300 bp and immunoprecipiated with the indicated antibodies. All libraries were constructed using KAPA Hyper Prep kits with Illumina TruSeq adapters, 18 cycles of amplification and dual SPRI size selection post-amplification

Sequencing Platform

instrument_model
NextSeq 500

hg38

Number of total reads
35190270
Reads aligned (%)
17.2
Duplicates removed (%)
84.4
Number of peaks
20888 (qval < 1E-05)

hg19

Number of total reads
35190270
Reads aligned (%)
17.2
Duplicates removed (%)
84.9
Number of peaks
20719 (qval < 1E-05)

Base call quality data from DBCLS SRA