|
| Status |
Public on Apr 26, 2024 |
| Title |
231-09 Plate4 NK 9 |
| Sample type |
SRA |
| |
|
| Source name |
NK
|
| Organism |
Macaca mulatta |
| Characteristics |
cell type: NK
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
RNA was purified using RNACleanXP Solid Phase Reversible Immobilization (SPRI) beads (Beckman Coulter). Beads with bound RNA were re-suspended in 5 ul of RSB buffer.
Single-cell RNA sequencing was performed by Medgenome using a modified version of the ClonTech SMART-Seq Single Cell Kit that utilized miniaturization to ΒΌ volumes using a MANTIS Liquid Handler (Formulatrix). Amplified cDNA was fragmented and appended with dual-indexed barcodes using Illumina Nextera kits.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic single cell |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Description |
Plate_4_NK_9
|
| Data processing |
The fastq files were aligned to MacaM v7 using STAR aligner v 2.5.2b. The raw counts from ReadsPerGene output of STAR was used for downstream analysis using Seurat v4.0.4.
Assembly: MacaM v7
Supplementary files format and content: The ReadsPerGene output from STAR for each cell was combined as separate columns in ReadCounts.txt.The MacaM v7.8.2 gtf was used to convert gene id to gene names.
|
| |
|
| Submission date |
Apr 08, 2024 |
| Last update date |
Apr 26, 2024 |
| Contact name |
Gregory K Tharp |
| E-mail(s) |
gktharp@emory.edu
|
| Phone |
404-727-7797
|
| Organization name |
Yerkes National Primate Research Center
|
| Department |
Developmental and Cognitive Neuroscience
|
| Lab |
Genomics Core
|
| Street address |
954 Gatewood Dr
|
| City |
Atlanta |
| State/province |
GA |
| ZIP/Postal code |
30329-4208 |
| Country |
USA |
| |
|
| Platform ID |
GPL27943 |
| Series (1) |
| GSE263399 |
Natural killer cell receptor expressing B cells: a distinct but rare subset of innate immune cells in rhesus macaques |
|
| Relations |
| BioSample |
SAMN40871638 |
| SRA |
SRX24186552 |
