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 type
Lung fibroblast
ectopic gene expression
EMPTY VECTOR
passage from isolation
passage 21-28
chip antibody
none

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
For ChIPSeq lysates were clarified from sonicated crosslinked nuclei and H3K27ac-DNA complexes were isolated with antibody. ChIPSeq libraries were prepared as in http://bioinformatics-renlab.ucsd.edu/RenLabLibraryProtocolV1.pdf.

Sequencing Platform

instrument_model
Illumina HiSeq 2500

hg38

Number of total reads
31914153
Reads aligned (%)
99.0
Duplicates removed (%)
5.5
Number of peaks
1177 (qval < 1E-05)

hg19

Number of total reads
31914153
Reads aligned (%)
98.0
Duplicates removed (%)
7.0
Number of peaks
1148 (qval < 1E-05)

Base call quality data from DBCLS SRA