Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
JUN

Cell type

Cell type Class
Lung
Cell type
MRC-5
Primary Tissue
Lung
Tissue Diagnosis
Normal

Attributes by original data submitter

Sample

source_name
fibroblasts
cell line
MRC5
treatment
induced CAFs (iCAFs)
chip antibody
p-JUN

Sequenced DNA Library

library_name
GSM5876180
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Briefly, cells were cross-linked with 1% formaldehyde for 10 minutes at room temperature. For selected experiments (ChIP for JUN and p-JUN), cells were double crosslinked with 2 mM EGS and 1% formaldehyde for 15 minutes at room temperature. Then it was quenched by 0.125 mol/L glycine for 5 minutes. Followed washing twice by PBS, the cells were resuspended and lysed. Then sonicating with a BioRuptor sonicator was performed. At 4°C, centrifugation at 15,000×g for 25 min was performed. Primary antibodies were added to the chromatin overnight at 4°C. Then 30ul protein A/G magnetic beads for IP were added. After 2-hour incubation at 4°C, the beads were washed three times by washing buffer. ChIP DNA was purified using PCR purification kits after reverse cross-linking at 65°C overnight. Library construction was performed using Trueprep DNA library prep kit V2 for illumina.

Sequencing Platform

instrument_model
Illumina NovaSeq 6000

hg38

Number of total reads
21715347
Reads aligned (%)
69.9
Duplicates removed (%)
22.4
Number of peaks
475 (qval < 1E-05)

hg19

Number of total reads
21715347
Reads aligned (%)
69.3
Duplicates removed (%)
22.6
Number of peaks
352 (qval < 1E-05)

Base call quality data from DBCLS SRA