|
Status |
Public on Apr 26, 2024 |
Title |
231-09 Plate4 NK 3 |
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_3
|
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 |
SAMN40871643 |
SRA |
SRX24186547 |