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Sample GSM6213101 Query DataSets for GSM6213101
Status Public on Feb 07, 2023
Title Chordoma Sample 4
Sample type SRA
Source name Chordoma
Organism Homo sapiens
Characteristics tissue: Chordoma
cell type: Tumor
Extracted molecule total RNA
Extraction protocol RNA extracted with Trizol and a bead beater
Nugen Ovation Pico WTA kit followed by WT-Ovation Exon Module then Illumina DNA Sample Prep Kit
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina Genome Analyzer II
Data processing Reads mapping to human rRNA (using Bowtie 0.12.7) were removed
Reads mapped using STAR (version 2.7.10a)
Gene read counts generated using STAR (--quantMode GeneCounts), unstranded RNA-seq read counts shown in processed files
Assembly: GRCh38 primary assembly and Gencode v40 annotations
Supplementary files format and content: Tab-delimited text file exported from STAR; Column 1: Gene ID; Column 2: Read counts
Submission date Jun 03, 2022
Last update date Feb 07, 2023
Contact name Stefan Halvorsen
Organization name Massachusetts General Hospital
Department Center for Computational and Integrative Biology
Lab Seed Lab
Street address 185 Cambridge Street
City Boston
State/province MA
ZIP/Postal code 02114
Country USA
Platform ID GPL9115
Series (2)
GSE205457 Expression data from chordoma and notochord (RNA-Seq)
GSE205458 Expression data from chordoma and notochord
BioSample SAMN28860884
SRA SRX15591245

Supplementary file Size Download File type/resource 287.5 Kb (ftp)(http) TAB
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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