Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
Fo

Cell type

Cell type Class
Digestive tract
Cell type
Intestinal villus
NA
NA

Attributes by original data submitter

Sample

source_name
mouse intestinal villus cells
antibody
Foxg1
tissue
mouse intestinal villus cells
strain
B6; 129 mixed background
cell type
Adult Epithelial cells; proximal 1/3 of intestine
developmental stage
adult
genotype
Eed F/F; Villin-CRE

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Epithelium from proximal 1/3 of mouse intestine was isolated by incubation with 5mM EDTA in PBS for 45 minutes at 4°C. Cells were snap-frozen in liquid nitrogen and used for subsequent ChIP analysis. Whole cell lysates were sonicated and incubated with Foxg1 (Active Motif 61211) overnight for immunoprecipitation. ThruPLEX DNA-seq Kit (Rubicon Genomics) was used to prepare libraries, and 75 bp single-end reads were sequenced on an Illumina NextSeq 500 instrument.

Sequencing Platform

instrument_model
NextSeq 500

mm10

Number of total reads
25796847
Reads aligned (%)
65.8
Duplicates removed (%)
21.4
Number of peaks
468 (qval < 1E-05)

mm9

Number of total reads
25796847
Reads aligned (%)
65.6
Duplicates removed (%)
21.4
Number of peaks
420 (qval < 1E-05)

Base call quality data from DBCLS SRA