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Sample GSM7029058 Query DataSets for GSM7029058
Status Public on Jun 07, 2023
Title Rax-GFP ESCs, day 6, three biological replicate pool, scRNAseq
Sample type SRA
Source name ESC-derived eye organoids (Rax-GFP ESCs)
Organism Mus musculus
Characteristics tissue: eye organoid
cell type: retina progenitors
genotype: Rax-GFP knockin Het
treatment: culture day 6
Growth protocol The method was descrived previously Nature Protocols volume 7, pages69–79 (2012).
Extracted molecule total RNA
Extraction protocol Library was performed according to the manufacter’s instructions (single cell 3’ v2 protocol, 10x Genomics). Chromium Single Cell v2 Reagent Kit and Controller (10X Genomics, Pleasanton, CA, USA)
Library strategy RNA-Seq
Library source transcriptomic single cell
Library selection cDNA
Instrument model Illumina HiSeq 4000
Description 10x Genomics
Data processing The demultiplexing, barcoded processing, gene counting and aggregation were made using the Cell Ranger software v2.0.1 (
Single cell data was further processed with Seurat, version 2.3.4
Assembly: mm10
Supplementary files format and content: Tab-separated values files and matrix files
Submission date Feb 06, 2023
Last update date Jun 07, 2023
Contact name NOZOMU TAKATA
Organization name Northwestern University Feinberg School of Medicine
Department Center for Vascular and Developmental Biology
Street address 303 East Superior Street, 10-220
City Chicago
State/province Illinois
ZIP/Postal code 60611
Country USA
Platform ID GPL21103
Series (2)
GSE202758 Lactate-dependent Transcriptional Regulation Controls Mammalian Eye Morphogenesis [scRNA-seq]
GSE202759 Lactate-dependent Transcriptional Regulation Controls Mammalian Eye Morphogenesis.
BioSample SAMN33141964
SRA SRX19293636

Supplementary file Size Download File type/resource
GSM7029058_GO2_barcodes.tsv.gz 29.3 Kb (ftp)(http) TSV
GSM7029058_GO2_genes.tsv.gz 212.7 Kb (ftp)(http) TSV
GSM7029058_GO2_matrix.mtx.gz 73.5 Mb (ftp)(http) MTX
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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