Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K4me3

Cell type

Cell type Class
Kidney
Cell type
293
Primary Tissue
Kidney
Tissue Diagnosis
Normal

Attributes by original data submitter

Sample

source_name
HEK293
cell description
embryonic kidney
prdm9 allele
PRDM9C-G278A
ChIP
H3K4me3
antibody manufacturer
Millipore/EMD
antibody catalog number
07-473

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Nuclei were isolated from cells using hypotonic lysis. Chromatin was fragmented by Mnase digestion. After high speed spin soluble chromatin was removed and used for ChIP Kapa Hyper Prep Kits (Kapa Biosystems)

Sequencing Platform

instrument_model
Illumina HiSeq 2000

hg38

Number of total reads
48227913
Reads aligned (%)
95.3
Duplicates removed (%)
4.4
Number of peaks
544 (qval < 1E-05)

hg19

Number of total reads
48227913
Reads aligned (%)
94.3
Duplicates removed (%)
5.2
Number of peaks
475 (qval < 1E-05)

Base call quality data from DBCLS SRA