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Sample GSM7140369 Query DataSets for GSM7140369
Status Public on May 08, 2024
Title KFO-9
Sample type SRA
 
Source name primary pancreatic ductal adenocarcinoma (PDAC)
Organism Homo sapiens
Characteristics tissue: primary pancreatic ductal adenocarcinoma (PDAC)
Extracted molecule total RNA
Extraction protocol ReliaPrep™ FFPE Total RNA Miniprep System (Promega)
TruSeq® Stranded Total RNA Library Prep Human/Mouse/Rat (Cat. N°20020596)
 
Library strategy ssRNA-seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina NovaSeq 6000
 
Data processing Sequence images were transformed with Illumina software BaseCaller to BCL files, which was demultiplexed to fastq files with bcl2fastq v2.20.0.422
STAR version 2.7.8a was used to align the reads to the hg38 genome using 2 mismatches within 50 bases
featureCounts version 1.5.0-p1 was used to quantify reads for genes in hg38 version 107
Assembly: hg38 gene version 107
Supplementary files format and content: Tab-delimited gene counts
 
Submission date Apr 03, 2023
Last update date May 08, 2024
Contact name Gabriela Salinas
E-mail(s) Gabriela.Salinas-Riester@medizin.uni-goettingen.de
Organization name Universitaetsmedizin Goettingen
Department Department of Pathology
Lab NGS Integrative Genomics
Street address Kreuzbergring 57
City Goettingen
State/province Lower-Saxony
ZIP/Postal code 37075
Country Germany
 
Platform ID GPL24676
Series (2)
GSE228844 New strategies for the identification of intronic variants related to splicing events in pancreas cancer [RNA-Seq]
GSE229007 New strategies for the identification of intronic variants related to splicing events in pancreas cancer
Relations
BioSample SAMN34060273
SRA SRX19857859

Supplementary file Size Download File type/resource
GSM7140369_KFO-9_geneCounts.txt.gz 273.2 Kb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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