Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

Cell type

Cell type Class
Lung
Cell type
Lung fibroblasts
NA
NA

Attributes by original data submitter

Sample

source_name
fetal lung fibroblast
treatment
IFN-γ (50ng/mL) 2hr
experiment
ChIP-seq
antibody
no
restriction enzyme
no

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Hi-C experiments were conducted in biological replicates using HindIII according to previous publication (Lieberman-Aiden, E. et al. Comprehensive mapping of long-range interactions reveals folding principles of the human genome. Science 326, 289-93 (2009).). ChIP-seq protocol can be found from http://bioinformatics-renlab.ucsd.edu/RenLabLibraryProtocolV1.pdf. GRO-seq experiments were performed according to previous publication (Wang, D. et al. Reprogramming transcription by distinct classes of enhancers functionally defined by eRNA. Nature 474, 390-4 (2011).). Libraries were prepared according to Illumina's instruction or cited literatures.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

hg38

Number of total reads
23535915
Reads aligned (%)
95.8
Duplicates removed (%)
1.6
Number of peaks
866 (qval < 1E-05)

hg19

Number of total reads
23535915
Reads aligned (%)
94.9
Duplicates removed (%)
3.0
Number of peaks
969 (qval < 1E-05)

Base call quality data from DBCLS SRA