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
HEK293T
chip antibody
none

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Genomic DNA was extracted using the DNeasy Blood & Tissue Kit (Qiagen, 69506) according to the manufacturer’s instructions. For ChIP, transfected cells were subjected to chromatin immunoprecipitation (ChIP) with a commercially available kit ChIP-IT Express Enzymatic (53009-AF, ActivMotif, distributed by Nordic Biolabs) and an anti-HA tag antibody (C29F4, Cell Signaling) according to the manufacturer's instructions. Library Preparation was followed by DNA-end repair, 3'-dA overhang and ligation of sequencing adaptors, PCR amplification and size selection (100-300bp, including adaptor sequence).

Sequencing Platform

instrument_model
Illumina HiSeq 2500

hg38

Number of total reads
74366860
Reads aligned (%)
94.9
Duplicates removed (%)
25.4
Number of peaks
440 (qval < 1E-05)

hg19

Number of total reads
74366860
Reads aligned (%)
94.3
Duplicates removed (%)
26.0
Number of peaks
517 (qval < 1E-05)

Base call quality data from DBCLS SRA