SRX3013878
GSM2706252: Mouse in vitro 45h ctrl ATAC-seq re1; Mus musculus; ATAC-seq

Sample information curated by ChIP-Atlas

Antigen

Antigen Class
ATAC-Seq
Antigen
ATAC-Seq

Cell type

Cell type Class
Embryo
Cell type
8-cell stage
NA
NA

Attributes by original data submitter

Sample

source_name
Preimplantation embryo
developmental stage
8-cell

Sequenced DNA Library

library_strategy
ATAC-seq
library_source
GENOMIC
library_selection
other
library_construction_protocol
After removing the zona pellucida, embryonic cells were washed with PBS and incubated in lysis buffer. ATAC-Seq libraries were prepared using ATAC-seq developed by Buenrostro et al. with slightly modification

Sequencing Platform

instrument_model
Illumina HiSeq 2000

Where can I get the processing logs?

Read processing pipeline log

mm10

Number of total reads
105068819
Reads aligned (%)
27.7
Duplicates removed (%)
47.5
Number of peaks
3768 (qval < 1E-05)

mm9

Number of total reads
105068819
Reads aligned (%)
27.7
Duplicates removed (%)
47.5
Number of peaks
3745 (qval < 1E-05)

Base call quality data from DBCLS SRA