Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K27ac

Cell type

Cell type Class
Embryo
Cell type
Embryonic trunk
NA
NA

Attributes by original data submitter

Sample

source_name
dissected embryonic trunk tissue
genotype
Raldh2 (Aldh1a2) knockout
strain
outbred
tissue
stage E8.5 embryo
chip antibody
H3K27ac (Active Motif, Cat#39133)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Total genomic DNA for all samples (except input) were extracted following immunoprecipitation using the Pierce Magnetic ChIP Kit (Thermo Scientific, Cat# 26157) following the manufacturer's instructions. Antibodies used were specific for either H3K27ac or H3K27me3 (Active Motif). Genomic DNA for input samples were prepared using the same protocol but without immunoprecipitation. Libraries were prepared according to NEB's instructions accompanying the NEBNext DNA Ultra II kit (catalog # E7645S). Libraries were sequenced on the NextSeq 500 following the manufacturer's protocols.

Sequencing Platform

instrument_model
NextSeq 500

mm10

Number of total reads
43991413
Reads aligned (%)
98.2
Duplicates removed (%)
12.5
Number of peaks
11464 (qval < 1E-05)

mm9

Number of total reads
43991413
Reads aligned (%)
98.0
Duplicates removed (%)
12.5
Number of peaks
11465 (qval < 1E-05)

Base call quality data from DBCLS SRA