Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

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
ChIP
input
antibody manufacturer
NA
antibody catalog number
NA

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 2500

hg38

Number of total reads
47992111
Reads aligned (%)
68.5
Duplicates removed (%)
2.3
Number of peaks
661 (qval < 1E-05)

hg19

Number of total reads
47992111
Reads aligned (%)
68.0
Duplicates removed (%)
2.8
Number of peaks
401 (qval < 1E-05)

Base call quality data from DBCLS SRA