Sample information curated by ChIP-Atlas

Antigen

Antigen Class
ATAC-Seq
Antigen
ATAC-Seq

Cell type

Cell type Class
Blood
Cell type
Thymus
NA
NA

Attributes by original data submitter

Sample

source_name
Human postnatal thymus
tissue
postnatal thymus
cell population
gamma delta CD1+
donor
D2
run
R2
sort phenotype
TCRgd+ CD3+ CD1+

Sequenced DNA Library

library_strategy
ATAC-seq
library_source
GENOMIC
library_selection
other
library_construction_protocol
Sorted cells were incubated with a transposition mix (TDE1 Tagment DNA Enzyme, 1X TD buffer and 0.01 % digitonin). Transposed DNA fragments were purified by using Qiagen MinElute PCR purification kit and amplified by PCR. Transposed DNA libraries were prepared with the Nextera Index Kit (24 Indices, 96 Samples) and sequenced as single-end or paired-end 75 bp reads on the NextSeq500 Illumina platform.

Sequencing Platform

instrument_model
NextSeq 500

hg38

Number of total reads
36970785
Reads aligned (%)
78.6
Duplicates removed (%)
47.1
Number of peaks
31411 (qval < 1E-05)

hg19

Number of total reads
36970785
Reads aligned (%)
78.2
Duplicates removed (%)
47.4
Number of peaks
31319 (qval < 1E-05)

Base call quality data from DBCLS SRA