|
| Status |
Public on Dec 11, 2020 |
| Title |
SCMNK cells_Rep2 |
| 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+_M_2
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 |
SAMN14605523 |
| SRA |
SRX8123916 |
