Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

Cell type

Cell type Class
Lung
Cell type
IMR-90
Primary Tissue
Lung
Tissue Diagnosis
Normal

Attributes by original data submitter

Sample

source_name
IMR90
cell line
IMR90
RNAi
none
damid tagged factor
none
antibody source
none

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
ChIP-seq: cells were cross-linked with 1% formaldehyde at room temperature for 10 min and neutralized with 0.125 M glycine. After sonication,chromatin was incubated with 5–10 μg of antibody at 4°C overnight. Immunoprecipitated complexes were collected using Dynabeads M280 sheep-anti-rabbit IgG or sheep-anti-mouse IgG (Invitrogen). Subsequently, immuno-complexes were washed, decorsslinked and DNA was purified by QIAquick Spin columns (Qiagen). ChIP-Seq and DamID-Seq libraries were generated using the TruSeq ChIP sample Prep kit (Illumina) or the Kapa Hyper Prep Kit for Illumina Platforms followed by Illumina sequencing.

Sequencing Platform

instrument_model
Illumina HiSeq 2500

hg38

Number of total reads
9085627
Reads aligned (%)
96.0
Duplicates removed (%)
6.5
Number of peaks
453 (qval < 1E-05)

hg19

Number of total reads
9085627
Reads aligned (%)
95.1
Duplicates removed (%)
7.5
Number of peaks
488 (qval < 1E-05)

Base call quality data from DBCLS SRA