|
Status |
Public on Jun 04, 2020 |
Title |
BI006_marm028_Munchkin_Put_rxn1 |
Sample type |
SRA |
|
|
Source name |
Adult Marmoset Brain
|
Organism |
Callithrix jacchus |
Characteristics |
platform: 10X v3 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.10X.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
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|
|
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 |
SAMN15096876 |
SRA |
SRX8466745 |