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Series GSE228371 Query DataSets for GSE228371
Status Public on Sep 22, 2023
Title Real-time quantitative PCR analysis of pre-treatment serum microRNAs from patients with prostate cancer
Organism Homo sapiens
Experiment type Expression profiling by RT-PCR
Summary The overall goal of the study was to determine if serum or serum EV microRNAs added prognostic value to current clinical nomograms for prostate cancer. Serum was collected from 203 patients with biopsy-proven prostate cancer. EVs were isolated from the 132 serum samples. RNA was isolated from these serum and serum EV samples, and 61 microRNAs were quantified per sample on a custom qPCR plate. The microRNA data was normalized using NormFinder. The normalized microRNA data was then compared to adverse pathology and prostate biopsy Gleason grade group.
 
Overall design Serum was collected in BD gold top (serum-separator) vacutainers from each patient and separated by centrifugation. Extracellular vesicles (EVs) were isolated from 500 µL using ExoQuick (System Biosciences). RNA was isolated from 200 µL serum per sample or the EV pellet using miRNeasy Serum/Plasma kit (Qiagen). RNA was quantified by Nanodrop and Qubit microRNA Assay. 5 µL of RNA was input for each cDNA reaction using the miRCURY LNA RT Kit (Qiagen). 61 microRNAs were quantified per sample on a custom PCR plate using the miRCURY LNA miR SYBR Green PCR Kit/Handbook (Qiagen). The samples were run on the Applied Biosystem ViiA7 instrument for 40 cycles.
 
Contributor(s) Nonn L, Zenner M
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Submission date Mar 28, 2023
Last update date Sep 22, 2023
Contact name Morgan Zenner
E-mail(s) zenner2@uic.edu
Phone 8473728777
Organization name University of Illinois at Chicago College of Medicine
Department Pathology
Lab Larisa Nonn
Street address 909 South Wolcott Ave
City Chicago
State/province IL
ZIP/Postal code 60612
Country USA
 
Platforms (1)
GPL33285 miRCURY Human LNA miRNA Custom PCR Panel
Samples (312)
GSM7119510 prostate cancer patient pre-treatment serum, DOD1
GSM7119511 prostate cancer patient pre-treatment serum, DOD3
GSM7119512 prostate cancer patient pre-treatment serum, DOD4
Relations
BioProject PRJNA949587

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE228371_fold-change.txt.gz 1.4 Kb (ftp)(http) TXT
GSE228371_metadata_all335samples.xlsx 76.1 Kb (ftp)(http) XLSX
GSE228371_non-normalized_data_all335samples.tar.gz 55.4 Kb (ftp)(http) TAR
Processed data included within Sample table
Processed data are available on Series record
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