|
| Status |
Public on Jul 15, 2019 |
| Title |
25y_F_1_BM |
| Sample type |
SRA |
| |
|
| Source name |
Bone marrow
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: Bone marrow
cell type: NK cells
sorting population: Lin-CD7+
genotype/variation: healthy donor
gender: F
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Cells were washed once with ice-cold PBS containing 10% FBS post-sorting and counted using hemocytometer. After that, the cells were loaded to 10X chromium machine (10X Genomics, Pleasanton, CA) and run through the library preparation procedures following guidance from the Chromium Single Cell 3’ Reagent Kits v2.
scRNA libraries were prepared for sequencing using the guidance from the 10X Chromium Single Cell 3’ Reagent Kits v2
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Data processing |
Raw Illumina sequencing data was demultiplexed and fastq files were generated using 10X Genomics Cellranger mkfastq v1.3.1
Fastq files were aligned to the hg19 genome and unique UMI sums per gene were calculated using 10X Genomics Cellranger count v1.3.1
Genome_build: hg19
Supplementary_files_format_and_content: The three files per sample are 10X cellranger count output from non-empty droplets. Valid cell barcodes and analyzed genes are present as tab-delimited files. Unique UMI sums per gene per cell are recorded in market exchange format.
|
| |
|
| Submission date |
Apr 29, 2019 |
| Last update date |
Jul 16, 2019 |
| Contact name |
Subramaniam Malarkannan |
| E-mail(s) |
malarkannanlab@gmail.com
|
| Organization name |
Versiti Blood Research Institute
|
| Street address |
8727 W Watertown Plank Rd
|
| City |
Milwaukee |
| State/province |
WI |
| ZIP/Postal code |
53213 |
| Country |
USA |
| |
|
| Platform ID |
GPL18573 |
| Series (1) |
| GSE130430 |
The Developmental Heterogeneity of Human Natural Killer Cells Defined by Single-cell Transcriptome |
|
| Relations |
| BioSample |
SAMN11526142 |
| SRA |
SRX5763721 |
