Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K4me1

Cell type

Cell type Class
Digestive tract
Cell type
DKO-1
NA
NA

Attributes by original data submitter

Sample

source_name
DKO1 cells
cell line
DKO1
cell type
colon cancer cell line; DNMT3B & DNM1 KO
Sex
male
chip antibody
anti-H3K4me1 (Active Motif #39297)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Cells were fixed and nuclei were sonicated. Histone-DNA complexes were isolated with target antibody. Libraries were prepared according to Illumina's recommendation from 20ng ChIP'ed DNA and indexed prior to sequencing on HiSeq2000 using 50SR cycles

Sequencing Platform

instrument_model
Illumina HiSeq 2000

hg38

Number of total reads
48569302
Reads aligned (%)
65.9
Duplicates removed (%)
67.4
Number of peaks
2902 (qval < 1E-05)

hg19

Number of total reads
48569302
Reads aligned (%)
65.7
Duplicates removed (%)
67.9
Number of peaks
2937 (qval < 1E-05)

Base call quality data from DBCLS SRA