Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K4me2

Cell type

Cell type Class
Digestive tract
Cell type
Colonic mucosa
NA
NA

Attributes by original data submitter

Sample

source_name
Primary colonic mucosa
tissue
Snap-frozen tissue
antibody
H3K4me2 (Millipore, 07-030)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
For ChIPseq:ThruPLEX-FD kits (Rubicon Genomics) was used and 75 bp single-end reads were sequenced on a NextSeq 500 instrument (Illumina). For RNAseq: TruSeq RNA Sample Preparation Kit (Illumina) was used according to the manufacturer's instructions and 75 bp single-end reads were sequenced on an Illumina NextSeq 500 instrument.

Sequencing Platform

instrument_model
NextSeq 500

hg38

Number of total reads
37694929
Reads aligned (%)
93.2
Duplicates removed (%)
5.1
Number of peaks
4797 (qval < 1E-05)

hg19

Number of total reads
37694929
Reads aligned (%)
92.7
Duplicates removed (%)
5.7
Number of peaks
4598 (qval < 1E-05)

Base call quality data from DBCLS SRA