Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
NR1H2

Cell type

Cell type Class
Digestive tract
Cell type
HT-29
Primary Tissue
Colon
Tissue Diagnosis
Adenocarcinoma

Attributes by original data submitter

Sample

source_name
LXRB_48h_GW3965
cell line
HT29
cell type
colorectal adenocarcinoma
agent
GW3965
time
48hr
chip antibody
anti-NR1H2 (Active Motif, 61178)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
ChIP-seq was performed as previously described (Reddy et al. Molecular Cell 2013). RNA-seq was performed as previously outlned (Gertz et al. 2012) Illumina Single End for ChIP-seq, Illumina Paired End for RNA-seq

Sequencing Platform

instrument_model
Illumina HiSeq 2000

hg19

Number of total reads
24559628
Reads aligned (%)
83.5
Duplicates removed (%)
7.6
Number of peaks
20028 (qval < 1E-05)

hg38

Number of total reads
24559628
Reads aligned (%)
84.4
Duplicates removed (%)
7.0
Number of peaks
20020 (qval < 1E-05)

Base call quality data from DBCLS SRA