Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
NR1H3

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
LXRA-FLAG_48h_GW3965
cell line
HT29
cell type
colorectal adenocarcinoma
agent
GW3965
time
48hr
chip antibody
anti-FLAG (Sigma, F1804)

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
18767617
Reads aligned (%)
88.5
Duplicates removed (%)
6.9
Number of peaks
38813 (qval < 1E-05)

hg38

Number of total reads
18767617
Reads aligned (%)
89.3
Duplicates removed (%)
6.5
Number of peaks
38877 (qval < 1E-05)

Base call quality data from DBCLS SRA