Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
XRN2

Cell type

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

Attributes by original data submitter

Sample

source_name
HEK293 Flp-in T-REx pcDNA5 HA-Xrn2 WT
cell line
HEK293
growth conditions
DMEM 10% FCS,+ hygromycin + blasticidin + doxycycline
antibody
rabbit anti-Xrn2 (aa402-537, affinity pure Brannan et al Mol Cell 46, 311-324, 2012 )

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
cross-linked Chromatin was sonicated with a Bioruptor IPs from 1-2 mg of cross-linked extract were immunoprecipitated, and prepared for illumina library construction by repair with Klenow, T4 DNA polymerase and T4 polynucleotide kinase, A-tailing with Klenow exo-, ligation to branched adaptors, gel purification of ~200bp fragments, and amplification (18cycles) with Illumina Tru-seq primers using Phusion DNA polymerase.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

hg19

Number of total reads
14750368
Reads aligned (%)
84.0
Duplicates removed (%)
3.6
Number of peaks
1336 (qval < 1E-05)

hg38

Number of total reads
14750368
Reads aligned (%)
84.9
Duplicates removed (%)
2.9
Number of peaks
1211 (qval < 1E-05)

Base call quality data from DBCLS SRA