Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
REST

Cell type

Cell type Class
Digestive tract
Cell type
Colorectal cancer organoid
NA
NA

Attributes by original data submitter

Sample

source_name
ChIP-seq of REST in intact organoid
tissue
CRC121 organoid
chip antibody
REST (Millipore Sigma, 07-579, lot 2843200)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Extraction of material for sequencing was performed as in http://dx.doi.org/10.1038/nature13736 Libraries were prepared according to Roche's instructions accompanying the kapa htp library prep kit, and DNA was amplified with 12 PCR cycles.

Sequencing Platform

instrument_model
Illumina HiSeq 4000

hg19

Number of total reads
45716399
Reads aligned (%)
106.3
Duplicates removed (%)
41.9
Number of peaks
4276 (qval < 1E-05)

hg38

Number of total reads
45716399
Reads aligned (%)
108.9
Duplicates removed (%)
41.2
Number of peaks
4793 (qval < 1E-05)

Base call quality data from DBCLS SRA