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Sample GSM3926661 Query DataSets for GSM3926661
Status Public on Jul 27, 2020
Title DRGO-CTRL-1
Sample type SRA
 
Source name iPSC-derived
Organism Homo sapiens
Characteristics tissue: Dorsal Root Ganglia Organoid
Extracted molecule polyA RNA
Extraction protocol RNA was isolated with Trizol (Thermo Fisher), and treated with DNase I (NEB) according to manufacturer's instructions.
Library preparation was done with TruSeq RNA Library Prep Kit v2 (Illumina) according to manufacturer's instructions.
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 3000
 
Data processing Fastq files were mapped to the mm10 mouse reference genome with the STAR aligner v2.7 (Dobin et al., 2013).
Differential gene expression and Functional enrichment analyses were performed with DESeq2 (Love et al., 2014) and GSEA (Huang et al., 2009), respectively.
Statistical and downstream bioinformatics analyses were performed within the R environment.
Gene expression heatmaps were produced with GENE-E (Broad Institute).
Genome_build: hg38
 
Submission date Jul 03, 2019
Last update date Jul 27, 2020
Contact name Luca Massimino
E-mail(s) admin@lucamassimino.com
Phone 3389039500
Organization name Ospedale San Raffaele
Department Gastroenterology
Street address Via Olgettina, 58
City Milano
State/province MI
ZIP/Postal code 20100
Country Italy
 
Platform ID GPL21290
Series (1)
GSE133755 In vitro restoration of Friedreich's Ataxia defect with novel Cas9-edited hiPSC-derived Dorsal Root Ganglion-like Organoids (DRGOs) and Microfluidic System
Relations
BioSample SAMN12207156
SRA SRX6401996

Supplementary file Size Download File type/resource
GSM3926661_DRGO-CTRL-1_trimmed_counts.tab.gz 310.8 Kb (ftp)(http) TAB
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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