Sample information curated by ChIP-Atlas

Antigen

Antigen Class
ATAC-Seq
Antigen
ATAC-Seq

Cell type

Cell type Class
Neural
Cell type
Retinal progenitors cells
NA
NA

Attributes by original data submitter

Sample

source_name
retinal cells
cell type
retinal progenitor cells (RPCs)
developmental time point
embryonic day 18
strain
CD1

Sequenced DNA Library

library_strategy
ATAC-seq
library_source
GENOMIC
library_selection
other
library_construction_protocol
Open chromatin extraction, tagmentation and profiling (ATAC-Seq) performed based on Buenrostro et al. (2013); RNA extraction performed with Qiagen RNAeasy Mini kit; RNA-Seq; ATAC-Seq; Libraries prepared according to the Manufacturer's protocols: TruSeq total RNA Sample preparation kit and Nextera DNA sample preparation kit, Illumina® respectively.

Sequencing Platform

instrument_model
Illumina HiSeq 2500

mm10

Number of total reads
143651971
Reads aligned (%)
86.5
Duplicates removed (%)
30.3
Number of peaks
65440 (qval < 1E-05)

mm9

Number of total reads
143651971
Reads aligned (%)
86.4
Duplicates removed (%)
30.4
Number of peaks
65422 (qval < 1E-05)

Base call quality data from DBCLS SRA