|
| Status |
Public on Aug 31, 2023 |
| Title |
12-week HP Grin2a WT snRNA-seq Sample3 |
| Sample type |
SRA |
| |
|
| Source name |
Hippocampus
|
| Organism |
Mus musculus |
| Characteristics |
tissue: Hippocampus
genotype: WT
age: 12-week
|
| Extracted molecule |
nuclear RNA |
| Extraction protocol |
Brain tissue dissection and nuclei extraction were performed on the same day to avoid freeze-thaw cycles which would result in poor quality nuclei. A gentle, detergent-based dissociation was used to extract the nuclei, according to a previously published protocol available at protocols. io (https://www.protocols.io/view/frozen-tissue-nuclei-extraction-bbseinbe).
Extracted nuclei were loaded into the 10x Chromium V3.1 system (10x Genomics) and library preparation was performed according to the manufacturer’s protocol.
snRNA-seq
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic single cell |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Description |
10x Genomics
grin2a_12wHP_snRNAseq_meta.csv
|
| Data processing |
The demultiplexing, barcoded processing, gene counting and aggregation were made using the Cell Ranger software v3.0.2 (https://support.10xgenomics.com/single-cell-gene-expression/software/pipelines/latest/what-is-cell-ranger)
Assembly: mm10, including introns
Supplementary files format and content: Tab-separated values files and matrix files
|
| |
|
| Submission date |
Nov 22, 2022 |
| Last update date |
Aug 31, 2023 |
| Contact name |
Ally Nicolella |
| E-mail(s) |
anicolel@broadinstitute.org
|
| Organization name |
Broad Institute
|
| Department |
Stanley Center for Psychiatric Research
|
| Street address |
75 Ames St
|
| City |
Cambridge |
| State/province |
MA |
| ZIP/Postal code |
02142 |
| Country |
USA |
| |
|
| Platform ID |
GPL24247 |
| Series (2) |
| GSE218572 |
Brain region-specific changes in neurons and glia and dysregulation of dopamine signaling in Grin2a mutant mice [snRNA-seq] |
| GSE218573 |
Brain region-specific changes in neurons and glia and dysregulation of dopamine signaling in Grin2a mutant mice |
|
| Relations |
| BioSample |
SAMN32855555 |
| SRA |
SRX19119258 |
