Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

Cell type

Cell type Class
Digestive tract
Cell type
Small intestine
NA
NA

Attributes by original data submitter

Sample

source_name
wild type anti-Irf-1 input
strain background
C57Bl6/J;129/SvEv
developmental stage
E18.5
genotype/variation
wild type
tissue
small intestine

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Lysates were precleared with Protein G Dynabeads. Complexes were then isolated with 10µg anti-GFP monoclonal antibody (Invitrogen A11120, clone 3E6, IgG2a), polyclonal rabbit anti-Irf1 antibody (M-20, Santa Cruz, SC-640) or control rabbit IgG (Santa Cruz sc-2027, Mouse IgG) linked to Protein G Dynabeads. Sequencing libraries were then prepared using the Illumina ChIP-seq DNA Sample Prep Kit. Libraries were size selected at ~200bp and four libraries were multiplexed per lane on a HiSeq 2000.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

mm10

Number of total reads
42980111
Reads aligned (%)
85.2
Duplicates removed (%)
6.6
Number of peaks
327 (qval < 1E-05)

mm9

Number of total reads
42980111
Reads aligned (%)
85.1
Duplicates removed (%)
7.0
Number of peaks
305 (qval < 1E-05)

Base call quality data from DBCLS SRA