Sample information curated by ChIP-Atlas

Antigen

Antigen Class
ATAC-Seq
Antigen
ATAC-Seq

Cell type

Cell type Class
Embryo
Cell type
Otocysts
NA
NA

Attributes by original data submitter

Sample

source_name
Otocysts from E14 embryos (WT)
strain
C57BL/6
genotype/variation
WT
tissue
otocysts
developmental stage
E14
treatment
control

Sequenced DNA Library

library_strategy
ATAC-seq
library_source
GENOMIC
library_selection
other
library_construction_protocol
E10.5 mouse otocysts or E14 mouse cochleae were dissected, tissue was digested with Collagenase (C0130, Sigma, 0.3mg/ml) during 45 minutes at 37ºC and cells were suspended and counted in a Neubauer chamber. Assay for Transposase-Accessible Chromatin with high throughput sequencing (ATAC-Seq) experiments were performed as described in Buenrostro et al., 2015. Curr. Protoc. Mol. Biol. 109, 21.29.1-9. doi:10.1002/0471142727.mb2129s109

Sequencing Platform

instrument_model
Illumina HiSeq 2000

mm10

Number of total reads
86790210
Reads aligned (%)
74.9
Duplicates removed (%)
24.4
Number of peaks
11493 (qval < 1E-05)

mm9

Number of total reads
86790210
Reads aligned (%)
74.8
Duplicates removed (%)
24.5
Number of peaks
11457 (qval < 1E-05)

Base call quality data from DBCLS SRA