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Sample GSM6752726 Query DataSets for GSM6752726
Status Public on Aug 31, 2023
Title 12-week SSC Grin2a WT snRNA-seq Sample1
Sample type SRA
 
Source name Somatosensory Cortex
Organism Mus musculus
Characteristics tissue: Somatosensory Cortex
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_12wSSC_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 SAMN32855602
SRA SRX19119230

Supplementary file Size Download File type/resource
GSM6752726_grin2a_12wSSC-WT1_barcodes.tsv.gz 43.5 Kb (ftp)(http) TSV
GSM6752726_grin2a_12wSSC-WT1_features.tsv.gz 284.1 Kb (ftp)(http) TSV
GSM6752726_grin2a_12wSSC-WT1_matrix.mtx.gz 71.5 Mb (ftp)(http) MTX
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file
Processed data are available on Series record

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