Sample information curated by ChIP-Atlas

Antigen

Antigen Class
ATAC-Seq
Antigen
ATAC-Seq

Cell type

Cell type Class
Others
Cell type
Cochlea hair cells
NA
NA

Attributes by original data submitter

Sample

source_name
Cochlea hair cells
tissue
Cochlea hair cells
age
P1
virus infection
none
strain
Outbred (ICR)
genotype
Atoh1-GFP (Atoh1tm4.1Hzo)

Sequenced DNA Library

library_strategy
ATAC-seq
library_source
GENOMIC
library_selection
other
library_construction_protocol
The cell pellet was re-suspended in a transposase-containing reaction mixture complete with 0.05% digitonin prior to tagmentation at 37oC with 1000 rpm agitation for 30 minutes. Next, transposed DNA was purified with a Qiagen PCR MinElute kit (Qiagen 28004). According to Fast-ATAC protocol, with Illumina Nextera kit transposase and custom Illumina adapters.

Sequencing Platform

instrument_model
NextSeq 500

mm10

Number of total reads
25767465
Reads aligned (%)
53.3
Duplicates removed (%)
21.2
Number of peaks
7027 (qval < 1E-05)

mm9

Number of total reads
25767465
Reads aligned (%)
53.2
Duplicates removed (%)
21.2
Number of peaks
7001 (qval < 1E-05)

Base call quality data from DBCLS SRA