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Sample GSM5073445 Query DataSets for GSM5073445
Status Public on Apr 13, 2024
Title Donor 1 (DN1)
Sample type SRA
 
Source name FACS sorted primitive HSPC cells
Organism Homo sapiens
Characteristics time point: 24h upon ZFN nuclease delivery
cell type: Cord blood derived CD34+ cells
Extracted molecule total RNA
Extraction protocol Droplet-based digital 5’scRNA-seq was performed on A Chromium Single-Cell Controller (10x Genomics, Pleasanton, CA) using the Chromium Single Cell 5’ Reagent Kit v2 coupled to feature barcoding technology for cell surface protein according to the manufacturer’s instructions.
scRNA-Seq libraries were prepared according to the manufacturer’s instructions
2x150nt of length through NovaSeq_6000_S1_300_cycles
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina NovaSeq 6000
 
Data processing Preliminary analysis using the 10X Genomics pipeline relying on cellranger (base calling, alignment, feature count) using default parameters
Filtering, Normalization, Scaling using the R package Seurat
Identification of clusters using the Louvin algorithm privded by the R package Seurat
Identification of differentially expressed genes using the MAST algorithm provided by the R package Saurat
Genome_build: GRCh38
Supplementary_files_format_and_content: 10X Genomics - Cellranger matrix
 
Submission date Feb 10, 2021
Last update date Apr 13, 2024
Contact name Ivan Merelli
E-mail(s) ivan.merelli@itb.cnr.it
Phone +390226422600
Organization name Consiglio Nazionale delle Ricerche
Department Istituto di Tecnologie Biomediche
Lab Bioinformatics
Street address via F.lli Cervi 93
City Segrate
State/province Milano
ZIP/Postal code 20090
Country Italy
 
Platform ID GPL24676
Series (1)
GSE166507 CRISPR-based gene disruption coupled to targeted integration of novel, high-avidity, natural T cell receptors to WT1 for acute leukemia
Relations
BioSample SAMN17849343
SRA SRX10064497

Supplementary file Size Download File type/resource
GSM5073445_S1.tar.gz 93.9 Mb (ftp)(http) TAR
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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