RNA-seq of Homo sapiens: adult male prostate adenocarcinoma - SRA

SRX4282988: RNA-seq of Homo sapiens: adult male prostate adenocarcinoma
1 ILLUMINA (NextSeq 500) run: 27.5M spots, 2.1G bases, 796.2Mb downloads

Design: Total RNA was isolated from 33 tumor tissue samples using the MagNA Pure Compact RNA Isolation Kit (Roche, Switzerland). RNA concentration was determined using a NanoDrop 100 spectrophotometer (PeqLab, Germany) and Qubit 2.0 Fluorometer (Life Technologies, USA). The RIN (RNA Integrity Number) parameter, which characterizes the integrity of RNA, was evaluated using the Agilent 2100 Bioanalyzer (Agilent Technologies, USA). RIN for all samples studied was no less than 8.0. Libraries were prepared using the TruSeq Stranded mRNA LT kit (Illumina, USA) according to the manufacturer's protocol. The average size of prepared cDNA libraries was 300 bp. Library selection was PolyA selection, enrichment for messenger RNA (mRNA). Libraries were further validated prior to sequencing using quantitative PCR (PCR-RT). Sequencing was performed on the NextSeq500 System (Illumina, USA).

Submitted by: EIMB RAS

Study: Prognostic markers in locally advanced lymph node-negative prostate cancer

PRJNA477449 • SRP151104 • All experiments • All runs

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Age is one of the main risk factors for cancer development. The incidence of prostate cancer, as a multifactorial disease, also depends upon demographic factors, race, and genetic predisposition. Prostate cancer most frequently occurs in men over 60 years of age, indicating a clear association between age and disease onset. Carcinogenesis is followed by the deregulation of hundreds of genes, and some of these changes could serve as biomarkers for diagnosis, prognosis, prediction of drug therapy efficacy, as well as possible therapeutic targets. We performed bioinformatic analysis of TCGA data and RNA-Seq transcriptome profiling of a cohort of Russian patients to reveal prognostic markers of locally advanced lymph node-negative prostate cancer (LAPC). We also aimed to identify markers of the most common molecular subtype carrying the fusion transcript TMPRSS2-ERG.

Sample:

SAMN09469906 • SRS3447400 • All experiments • All runs

Organism: Homo sapiens

Library:

Name: N0_179T

Instrument: NextSeq 500

Strategy: RNA-Seq

Source: TRANSCRIPTOMIC

Selection: other

Layout: SINGLE

Runs: 1 run, 27.5M spots, 2.1G bases, 796.2Mb

Run	# of Spots	# of Bases	Size	Published
SRR7411427	27,526,355	2.1G	796.2Mb	2018-06-22

ID:: 5770373

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