|
| Status |
Public on Jun 07, 2024 |
| Title |
Saline biol rep 2 |
| Sample type |
SRA |
| |
|
| Source name |
Brain
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57Bl6/J
Sex: Male
age: 8 weeks
tissue: Brain
genotype: C57BL6/J
treatment: Saline IP
|
| Treatment protocol |
IP injection of saline or 5mg/kg oxycodone
|
| Growth protocol |
8-week old male C57 mice
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Fresh tissue dissection prior to freezing on dry ice
Per 10X Genomics kit instructions
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic single cell |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Description |
10X Genomics
|
| Data processing |
cellranger v3.1 'cellranger count'
Filtered cells <=5000 and >=200 unique genes
Filtered cells < 5% mitochondrial reads
Filtered out genes expressed in <3 cells
Filtered data scaled to median number of UMIs and log(x+1) transformed
Assembly: mm10-July2020-A
Supplementary files format and content: hdf5, per-molecule information for all molecules that contain a valid barcode, UI, and were assigned with high confidence to a gene or feature barcode. This is a required file to run cellranger aggr.
|
| |
|
| Submission date |
Mar 01, 2024 |
| Last update date |
Oct 18, 2024 |
| Contact name |
Alexander CW Smith |
| E-mail(s) |
smitaw@musc.edu
|
| Phone |
843-792-8872
|
| Organization name |
Medical University of South Carolina
|
| Department |
Neuroscience
|
| Street address |
173 Ashley Ave, BS403
|
| City |
Charleston |
| State/province |
SC |
| ZIP/Postal code |
29425 |
| Country |
USA |
| |
|
| Platform ID |
GPL24247 |
| Series (1) |
| GSE260687 |
Single-nuclei characterization of oxycodone's effects on dorsal peduncular nucleus |
|
| Relations |
| BioSample |
SAMN40216517 |
| SRA |
SRX23809780 |
