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Sample GSM4590027 Query DataSets for GSM4590027
Status Public on Jun 04, 2020
Title P60HippoRep1P1
Sample type SRA
 
Source name P60-70 Male Mice
Organism Mus musculus
Characteristics strain: C57Blk6/N
platform: Dropseq
tissue: Hippocampus
Extracted molecule total RNA
Extraction protocol dx.doi.org/10.17504/protocols.io.2srged6
Drop-seq (Macosko et al. 2014 Cell) 
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina NextSeq 500
 
Description single-nucleus gene expression data based on 3' transcript counts
F_GRCm38.81.P60Hippocampus.raw.dge.txt.gz
Data processing Sequencing Reads were aligned against the relevant genome build using STAR
Aligned Reads within a gene were collapsed to UMI(XM)-Gene Pairs and associated with single-cells through a cell barcode (XC) shared on Read 1
A count matrix - called the digital gene expression (DGE) matrix - was output for GAD1+/GAD2+ interneurons. Columns belong to STAMPs (cells) and transcript counts (rows)
Genome_build: GRCm38.81 (mouse); MusPutFur1.0 (ferret); calJac3 (marmoset); rheMac8 (macaque); hg19 (human)
Supplementary_files_format_and_content: digital gene expression matrix; comma-delimited file with columns = cells and rows = transcript counts
 
Submission date Jun 03, 2020
Last update date Jun 05, 2020
Contact name Fenna Marie Krienen
E-mail(s) fennak@gmail.com, fenna_krienen@hms.harvard.edu
Organization name Harvard Medical School
Department Genetics
Lab McCarroll
Street address 77 Ave Louis Pasteur, NRB 260
City Boston
State/province MA
ZIP/Postal code 02115
Country USA
 
Platform ID GPL19057
Series (1)
GSE151761 Innovations in primate interneuron repertoire
Relations
BioSample SAMN15096809
SRA SRX8466677

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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