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Sample GSM8309051 Query DataSets for GSM8309051
Status Public on Nov 13, 2024
Title optic tectum batch 4, scRNAseq
Sample type SRA
 
Source name optic tectum
Organism Danio rerio
Characteristics tissue: optic tectum
age: 7 day post fertilization
cell type: all cells
genotype: wild type
treatment: no treatment
Extracted molecule total RNA
Extraction protocol The optic tectum and torus longitudinalis of 6 and 7 dpf larvae were carefully dissected under a stereoscope. Cell dissociation was performed using the Papain Dissociation System (Worthington Biochemical Corporation).
libraries according to the manufacturer’s instructions (Chromium Single Cell 3′ Reagent Kit v3, 10x Genomics).
single-cell 3′ barcoded cDNA
 
Library strategy RNA-Seq
Library source transcriptomic single cell
Library selection cDNA
Instrument model Illumina NextSeq 500
 
Description 10x Genomics
dr_7dpf_tectum4_S1
Data processing Demultiplexing, barcoded processing, gene counting and aggregation were made using the Cell Ranger software v7.1.0
Assembly: GRCz11 genome assembly (Ensembl release 98)
Supplementary files format and content: Tab-separated values files and matrix files
 
Submission date Jun 06, 2024
Last update date Nov 13, 2024
Contact name Inbal Shainer
Organization name Max Planck Institute for Biological Intelligence
Street address Am Klopferspitz 18
City Martinsried
ZIP/Postal code 82152
Country Germany
 
Platform ID GPL20828
Series (1)
GSE269232 Positional information drives distinct traits in transcriptomically identified neuronal types
Relations
BioSample SAMN41708634
SRA SRX24823815

Supplementary file Size Download File type/resource
GSM8309051_dr_7dpf_tectum4_barcodes.tsv.gz 17.2 Kb (ftp)(http) TSV
GSM8309051_dr_7dpf_tectum4_features.tsv.gz 240.3 Kb (ftp)(http) TSV
GSM8309051_dr_7dpf_tectum4_matrix.mtx.gz 13.7 Mb (ftp)(http) MTX
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Raw data are available in SRA

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