Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

Cell type

Cell type Class
Embryo
Cell type
Forelimb
MeSH Description
A front limb of a quadruped. (The Random House College Dictionary, 1980)

Attributes by original data submitter

Sample

source_name
pooled forelimbs from hs1603 enhancer-null mouse embryos at e11.5
strain
FVB
tissue
Forelimb
developmental stage
embryonic day 11.5
genotype
hs1603 KO
chip antibody
Input

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Forelimbs from embryos at E11.5 were dissected and cells were disaggregated using a 2ml glass douncer. Nuclei were crosslinked with 1% formaldehyde for 5 minutes and quenched with Glycine (1mM final). Nuclear pellets were sonicated to a fragment range of 200-400bp using a Diagenode Bioruptor Sonicator. Sonicated extracts were precleared for 1 hour at 4˚C and incubated with anti-H3K27ac antibodies for 2 hours at 4˚C. Dynabeads (1:1 mixture of Protein A and G) were then incubated with the antibody-chromatin complexes for 30 minutes at 4˚C and ChIP-immune complexes were pulled down using a magnet. Illumina Truseq DNA sample prep kit

Sequencing Platform

instrument_model
Illumina HiSeq 4000

mm10

Number of total reads
36444003
Reads aligned (%)
93.2
Duplicates removed (%)
42.0
Number of peaks
61283 (qval < 1E-05)

mm9

Number of total reads
36444003
Reads aligned (%)
92.4
Duplicates removed (%)
41.8
Number of peaks
61132 (qval < 1E-05)

Base call quality data from DBCLS SRA