Sample information curated by ChIP-Atlas

Antigen

Antigen Class
ATAC-Seq
Antigen
ATAC-Seq

Cell type

Cell type Class
Epidermis
Cell type
Back skin
NA
NA

Attributes by original data submitter

Sample

source_name
Mouse back skin
Sex
male
age
P55
strain
Lgr5-eGFP-ires-CreER
sorting markers
GFP, CD34, integrin α6, integrin beta1

Sequenced DNA Library

library_strategy
ATAC-seq
library_source
GENOMIC
library_selection
other
library_construction_protocol
Bulge hair follicle stem cells (GFP+/CD34+/Itga6+/Itgb1+) and hair germ cells (GFP+/CD34-/Itga6+/Itgb1+) at the second telogen were FACS-purified and immediately sujected to ATAC-seq library generation. FACS-sorted cells were pelleted and incubated with cold lysis buffer (10 mM Tris-HCl, pH 7.4, 10 mM NaCl, 3 mM MgCl2, 0.1% IGEPAL CA-630). After removing lysis buffer by centrifugation, samples were subjected to a transposition reaction at 37°C for 30 min with 10μL transposase enzyme (Illumina Nextera DNA Preparation Kit). Transposed DNA was purified using QIAGEN MiniElute PCR purification kit and PCR amplified with 10-15 cycles. Library concentration and quality was assayed by D1000 Tape Station (Agilent) prior to sequencing. The samples were sequenced on Illumina HiSeq 2000 using a 50bp paired-end-reads setting.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

mm10

Number of total reads
28791322
Reads aligned (%)
90.6
Duplicates removed (%)
27.8
Number of peaks
53159 (qval < 1E-05)

mm9

Number of total reads
28791322
Reads aligned (%)
90.5
Duplicates removed (%)
27.8
Number of peaks
53123 (qval < 1E-05)

Base call quality data from DBCLS SRA