Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K27ac

Cell type

Cell type Class
Epidermis
Cell type
Belly skin
NA
NA

Attributes by original data submitter

Sample

source_name
Belly skin, WT, untreated, H3K27ac ChIP
genetic background
CU Black Six
genotype/variation
Wild-Type
age
14 weeks
gender
female
tissue
Belly skin
treatment
None
chip antibody
H3K27ac (Merck Millipore. Cat 07-360)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
To isolate pre-cancerous epidermal cells following short DMBA/TPA treatment, back skins were dissected and processed to single­cell suspensions as previously described (Jensen et al. 2010). For ChIP-seq, single-cell suspensions were cross-linked for 10 min at room temperature with 1% formaldehyde (methanol-free; Thermofisher, 28906) and quenched for 5 min to a final concentration of 0.125M glycine. Cells were washed 2x with cold PBS and frozen at -80°C. Libraries for sequencing were prepared using NEBNext Ultra DNA Library Prep Kit from Illumina (E7370L) following the manufacturer's instructions.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

mm10

Number of total reads
46762335
Reads aligned (%)
96.6
Duplicates removed (%)
12.1
Number of peaks
6511 (qval < 1E-05)

mm9

Number of total reads
46762335
Reads aligned (%)
96.4
Duplicates removed (%)
12.1
Number of peaks
6436 (qval < 1E-05)

Base call quality data from DBCLS SRA