Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
AFF4

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
breast cancer MCF7 cells
antibody
AFF4 (Bethyl Labs, A302-538A)
cell line
MCF7

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Cells were fixed with 1% formaldehyde for 15 mins, followed by incubation with a stop solution containing 0.125M of Glycine. Lysates were clarified from sonicated nuclei and chromatin fragemnts were isolated with antibody. The library construction was performed by Active Motif according to the company's protocol

Sequencing Platform

instrument_model
NextSeq 500

hg19

Number of total reads
44014589
Reads aligned (%)
38.5
Duplicates removed (%)
60.3
Number of peaks
3478 (qval < 1E-05)

hg38

Number of total reads
44014589
Reads aligned (%)
39.8
Duplicates removed (%)
59.1
Number of peaks
3578 (qval < 1E-05)

Base call quality data from DBCLS SRA