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_Input
cell line
IMR90
chip antibody
none (input)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Chromatin from 5 million cells per ChIP was prepared by formaldehyde cross-linking and sonication as described previously. Antibodies against MeCP2 (Abcam; ab2828) and ser2p-PolII (Abcam; ab5095) were added in manufacturer-recommended amounts per ChIP. For input control samples, DNA was isolated from 10% (vol.) of chromatin material used for ChIP by phenol/chloroform extraction and ethanol purification procedures. ChIP-Seq was carried out according to established protocols and prepared libraries were sequenced with the Illumina Genome Analyzer II or HiSeq 2000 sequencer according to the manufacturer’s instructions.

Sequencing Platform

instrument_model
Illumina Genome Analyzer II

hg38

Number of total reads
32391415
Reads aligned (%)
99.3
Duplicates removed (%)
5.1
Number of peaks
23539 (qval < 1E-05)

hg19

Number of total reads
32391415
Reads aligned (%)
98.9
Duplicates removed (%)
5.6
Number of peaks
23506 (qval < 1E-05)

Base call quality data from DBCLS SRA