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
Human Embryonic Kidney
cell line
HEK 293T
passage
19-21
chip antibody
none

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Crosslinked-cells were sonicated to get 300bp average fragments size followed by pulldown of histone-DNA complexes with HA antibody. Sequencing libraries were prepared by using 1-5 ng of immunoprecipitated DNA via Illumina TruSeq Chip Library Kit according to the manufacturer’s protocol. DNA fragments between 300 and 650 bp were isolated from gel and PCR amplified. Each library was validated by appropriate primer pairs on intended target regions of sgRNA.

Sequencing Platform

instrument_model
Illumina MiSeq

hg38

Number of total reads
5013513
Reads aligned (%)
95.9
Duplicates removed (%)
97.2
Number of peaks
1140 (qval < 1E-05)

hg19

Number of total reads
5013513
Reads aligned (%)
95.8
Duplicates removed (%)
97.2
Number of peaks
1129 (qval < 1E-05)

Base call quality data from DBCLS SRA