Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
NR3C1

Cell type

Cell type Class
Lung
Cell type
HASM2
NA
NA

Attributes by original data submitter

Sample

source_name
Human airway smooth muscle 2 (HASM2)
tissue
Human airway smooth muscle 2 (HASM2)
treatment
Dex
chip antibody
GR (gift of Miles Pufall)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Chromatin immunoprecipitation (ChIP) was performed as described previously (PMID: 23508109, 27371733), with the following modifications: cross-linking was performed by adding methanol-free 16% formaldehyde directly to the culture media to a final concentration of 1% and incubating for 5 minutes at room temperature with gentle rocking; samples were subsequently sonicated with a Diagenode Bioruptor at high power in 30-second bursts separated by 30-second incubations in ice water for a total of 25 cycles. A minimum of 1 ng DNA from ChIP samples were used to prepare libraries using the Nugen Ovation Ultralow System V2 1-16 Part No. 0344 according to the manufacturer’s instructions. Samples were run on an Illumina HiSeq using 1X50 bp end reads

Sequencing Platform

instrument_model
Illumina HiSeq 2000

hg19

Number of total reads
18609415
Reads aligned (%)
89.2
Duplicates removed (%)
8.7
Number of peaks
52213 (qval < 1E-05)

hg38

Number of total reads
18609415
Reads aligned (%)
89.9
Duplicates removed (%)
8.4
Number of peaks
52193 (qval < 1E-05)

Base call quality data from DBCLS SRA