|
Status |
Public on Dec 11, 2020 |
Title |
Nonmemory NK cells_Rep3 |
Sample type |
SRA |
|
|
Source name |
Spleen
|
Organism |
Mus musculus |
Characteristics |
strain: C57BL/6 cell type: CD27- NK cells infection: Zika virus
|
Treatment protocol |
Naive, CD27+ and CD27- NK cells were FACS sorted and proceeded for tagmentation immediately as per standard protocol.
|
Growth protocol |
NK cells were harvested from mice spleen on day 37 post-infection.
|
Extracted molecule |
genomic DNA |
Extraction protocol |
Intact nuclei were isolated after cell lysis, and tagmentation was performed using tagment DNA enzyme I (Illumina) and DNA was purified using Qiagen MinElute Reaction Cleanup Kit. Standard ATACseq protocol from 50000 cells. Paired-end 150 bp reads, Illumina HiseqX.
|
|
|
Library strategy |
ATAC-seq |
Library source |
genomic |
Library selection |
other |
Instrument model |
HiSeq X Ten |
|
|
Description |
CD27-_N_3 Chromatin
|
Data processing |
Reads were aligned to mouse genome (mm10) using BWA. Peak calling was performed using Homer. Genome_build: mm10 (GRCm38) Supplementary_files_format_and_content: *_ATAC_Normalized_counts.txt: Tab-delimited text files include TMM normalized data.
|
|
|
Submission date |
Apr 16, 2020 |
Last update date |
Dec 11, 2020 |
Contact name |
Sachin Mulik |
E-mail(s) |
sachin.mulik@uthct.edu
|
Phone |
9038772826
|
Organization name |
The University of Texas Health Science Center at Tyler
|
Department |
Pulmonary Immunology
|
Street address |
11937 US Hwy 271
|
City |
Tyler |
State/province |
Texas |
ZIP/Postal code |
75708 |
Country |
USA |
|
|
Platform ID |
GPL21273 |
Series (1) |
GSE148780 |
Memory like NK cells display stem cell like properties after Zika virus infection |
|
Relations |
BioSample |
SAMN14605519 |
SRA |
SRX8123920 |