Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

Cell type

Cell type Class
Neural
Cell type
HRPEpiC
Tissue
epithelium
Lineage
ectoderm
Description
retinal pigment epithelial cells

Attributes by original data submitter

Sample

source_name
Retinal Pigmented Epithelial Cells
tissue
Retinal Pigmented Epithelial Cells
treatment
TNF-alpha + TGF-beta
antibody
none

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
ChIPs were performed using approximately 10^7 cells fixed with 1% formaldehyde for 10 min at room temp. Sequencing libraries were prepared starting from ~30ng of ChIP DNA with NEBNext Multiplex Oligos for Illumina kit

Sequencing Platform

instrument_model
Illumina HiSeq 2000

hg38

Number of total reads
33850275
Reads aligned (%)
98.7
Duplicates removed (%)
4.3
Number of peaks
985 (qval < 1E-05)

hg19

Number of total reads
33850275
Reads aligned (%)
97.7
Duplicates removed (%)
5.5
Number of peaks
1205 (qval < 1E-05)

Base call quality data from DBCLS SRA