Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
Nr3c1

Cell type

Cell type Class
Embryonic fibroblast
Cell type
MEF
Tissue
Embryonic Fibroblast
Lineage
primaryCells
Description
Mouse Embryonic Fibroblast

Attributes by original data submitter

Sample

source_name
MEF-KOGR cells, stably integrated wild-type GFP-GR, Dex-treated, GFP ChIP
cell line
MEF-KOGR
cell type
mouse embryonic fibroblasts
stably expressing
wild-type GFP-GR
treatment
Dexamethasone
concentration
100 nM
time
1 h
chip antibody
GFP (Abcam, ab290, lot # GR278073-1)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
For ChIP-seq, lysates were clarified from sonicated nuclei, and protein-DNA complexes were isolated with specified antibody. For ATAC-seq, 100 000 isolated nuclei were treated with 2.5 µl Nextera Tn5 Transposase from Nextera kit. For RNA-seq, RNA was extracted using the PureLink RNA mini kit. Libraries were prepared for sequencing using standard Illumina protocols. For ChIP-seq, Illumina TruSeq Chip Sample Prep Kit; for ATAC-seq, Illumina Nextera DNA Library Prep Kit; for RNA-seq, Illumina Stranded Total RNA.

Sequencing Platform

instrument_model
NextSeq 500

mm10

Number of total reads
17385094
Reads aligned (%)
54.0
Duplicates removed (%)
28.5
Number of peaks
6618 (qval < 1E-05)

mm9

Number of total reads
17385094
Reads aligned (%)
53.6
Duplicates removed (%)
28.3
Number of peaks
6645 (qval < 1E-05)

Base call quality data from DBCLS SRA