|
Status |
Public on Aug 31, 2023 |
Title |
12-week HP Grin2a -/- snRNA-seq Sample5 |
Sample type |
SRA |
|
|
Source name |
Hippocampus
|
Organism |
Mus musculus |
Characteristics |
tissue: Hippocampus genotype: Grin2a -/- 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 |
SAMN32855552 |
SRA |
SRX19119252 |