|
| Status |
Public on Dec 02, 2021 |
| Title |
Ventral Midbrain |
| Sample type |
SRA |
| |
|
| Source name |
brain
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6
tissue: brain
age: adult 8-12 weeks
genotype: wild type
brain region: Ventral Midbrain
|
| Extracted molecule |
total RNA |
| Extraction protocol |
tissue were microdissected and either flash froze for single nuclei isolation or taken straight to single cell isolation protocol.
RNA libraries were prepared for sequencing using standard Illumina protocols
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Description |
10x seq output
|
| Data processing |
Cellranger pipeline was used to assign UMI
Scanpy was used for QC check
Scanpy was used for analyzing the data via cluster analysis and generation of gene expression plots
Genome_build: mm10 from 10x Genomics
Supplementary_files_format_and_content: Matrix table with raw gene counts for every gene and every sample
Supplementary_files_format_and_content: Matrix table with normalized gene counts for every gene and every sample
|
| |
|
| Submission date |
Nov 30, 2021 |
| Last update date |
Dec 03, 2021 |
| Contact name |
Victoria Cheung |
| Organization name |
University of California, San Francisco
|
| Street address |
1550 4th Street
|
| City |
San Francisco |
| State/province |
CA |
| ZIP/Postal code |
94158 |
| Country |
USA |
| |
|
| Platform ID |
GPL24247 |
| Series (1) |
| GSE189907 |
Virally Encoded Connectivity Transgenic Overlay RNA sequencing (VECTORseq) defines projection neurons involved in sensorimotor integration |
|
| Relations |
| BioSample |
SAMN23523624 |
| SRA |
SRX13266751 |
