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Sample GSM5060419 Query DataSets for GSM5060419
Status Public on Sep 15, 2021
Title CX-5461_ES 2
Sample type SRA
 
Source name ES cells
Organism Mus musculus
Characteristics cell type: ICM-derived ES cells
treatment: CX-5461
Growth protocol Mouse ES cells were cultured on 0.1% gelatin-coated plates with MEF feeder cells in LIF/2i media for 2 days.
Extracted molecule total RNA
Extraction protocol We used 10X Single Cell 3' Solution Reagents V2 following the manufacturer’s protocol (10x Genomics)
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 2500
 
Description single_cell_gene_expression_CX-5461.txt
Data processing Single-cell gene expression matrix was further analyzed with Seurat v2.3.4 (https://satijalab.org/seurat/).
We excluded the genes with expressed cell number smaller than 3 and the cells with nUMIs smaller than 500 or the expression percentages of mitochondrial genes larger than 0.2 and used 16 Principle Components (PCs) for tSNE analysis.
Genome_build: mm10
Supplementary_files_format_and_content: txt, gene expression level (Counts)
 
Submission date Feb 02, 2021
Last update date Sep 15, 2021
Contact name Hua Yu
E-mail(s) huayu@zju.edu.cn
Phone 18758008246
Organization name Zhejiang University
Street address 866 Yuhangtang Rd
City Hangzhou
ZIP/Postal code 310058
Country China
 
Platform ID GPL17021
Series (2)
GSE166027 rRNA Biogenesis Regulates Mouse 2C-like State by 3D Structure Reorganization of Peri-Nucleolar Heterochromatin [scRNA-seq]
GSE166041 rRNA Biogenesis Regulates Mouse 2C-like State by 3D Structure Reorganization of Peri-Nucleolar Heterochromatin
Relations
BioSample SAMN17764536
SRA SRX10008356

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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