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Sample GSM7474275 Query DataSets for GSM7474275
Status Public on Sep 27, 2023
Title Contrl2, replicate 1, scRNAseq
Sample type SRA
 
Source name spleen
Organism Mus musculus
Characteristics tissue: spleen
cell type: CD3 T
treatment: Control
Extracted molecule total RNA
Extraction protocol In each microwell, a magnetic bead was paired with a cell. Each magnetic bead had a unique cell label and multiple molecular labels (unique molecular identifier or UMI) for capturing RNA. When the RNA is released from the captured cells, it can hybridize to the magnetic beads.
The magnetic beads were then collected into a 1.5-ml Eppendorf tube for reverse transcription using GEXSCOPER Single-Cell RNA Library Kit to perform cDNA synthesis on single cells. After cDNA synthesis and PCR amplification, Qubit (Thermo, Waltham, MA, USA) was used for cDNA quantification and Fragment Analyzer was used to determine the cDNA fragment size. Following several steps including fragmentation, adapter ligation, purification, PCR amplification, size selection and QC analysis; libraries were constructed before being sequenced with 150 bp paired end reads on Illumina HiSeq X platform.
 
Library strategy RNA-Seq
Library source transcriptomic single cell
Library selection cDNA
Instrument model Illumina NovaSeq 6000
 
Data processing The demultiplexing, barcoded processing, gene counting and aggregation were made using the CeleScope version 1.6.1.
Correcting the deviation between samples using Harmony (https://portals.broadinstitute.org/harmony/).
Use Seurat to filter data, normalize and standardize data, perform PCA, etc.
Assembly: mm9
Supplementary files format and content: *tar: Tar archives include cell barcode file (barcodes.tsv), Feature file (genes.tsv), and Matrix file (matrix.mtx) for each sample.
 
Submission date Jun 12, 2023
Last update date Sep 27, 2023
Contact name Feifei Xiong
E-mail(s) xiongfeifei@sinopharm.com
Organization name Shanghai Institute of Biological Products
Street address 350 Anshun Rd,Shanghai
City Shanghai
ZIP/Postal code 200052
Country China
 
Platform ID GPL24247
Series (1)
GSE234756 An mRNA-based universal vaccine candidate confers improved cross-protection against heterosubtypic influenza viruses in mice
Relations
BioSample SAMN35717864
SRA SRX20663383

Supplementary file Size Download File type/resource
GSM7474275_Contrl-2_matrix.tar.gz 59.8 Mb (ftp)(http) TAR
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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