Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

Cell type

Cell type Class
Digestive tract
Cell type
Intestinal organoids
NA
NA

Attributes by original data submitter

Sample

source_name
intestinal epithelial organoids
tissue origin
organoids cultivated from patient-derived normal colon mucosa
passages
3-5 passages
antibody
none

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
2 week old intestinal epithelial organoids (passage 3-5) were pooled (n=12) and snap from prior to processing for chromatin immunoprecipitation and sequencing according to Mack SC et al Nature 2014 Feb 27;506(7489):445-50 Rubicon Genomics ThruPlex DNA-Seq 48S with single indices

Sequencing Platform

instrument_model
Illumina HiSeq 2000

hg38

Number of total reads
74259224
Reads aligned (%)
98.2
Duplicates removed (%)
6.1
Number of peaks
1955 (qval < 1E-05)

hg19

Number of total reads
74259224
Reads aligned (%)
97.4
Duplicates removed (%)
7.7
Number of peaks
1723 (qval < 1E-05)

Base call quality data from DBCLS SRA