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Sample GSM4590058 Query DataSets for GSM4590058
Status Public on Jun 04, 2020
Title marm022_Pu_collected_room_temp
Sample type SRA
 
Source name Adult Marmoset Brain
Organism Callithrix jacchus
Characteristics platform: Dropseq
tissue: Striatum; Putamen
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 NovaSeq 6000
 
Description single-nucleus gene expression data based on 3' transcript counts
marm.str.int.DS.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 GPL28240
Series (1)
GSE151761 Innovations in primate interneuron repertoire
Relations
BioSample SAMN15096906
SRA SRX8466708

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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