Summary of Study ST002498

This data is available at the NIH Common Fund's National Metabolomics Data Repository (NMDR) website, the Metabolomics Workbench,, where it has been assigned Project ID PR001613. The data can be accessed directly via it's Project DOI: 10.21228/M86H7K This work is supported by NIH grant, U2C- DK119886.


This study contains a large results data set and is not available in the mwTab file. It is only available for download via FTP as data file(s) here.

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Study IDST002498
Study TitlePlasma Metabolomics Profiling of 580 Patients from the Weill Cornell Medicine Early Detection Research Network Prostate Cancer Cohort
Study SummaryProstate cancer is the second most common cancer in men and affects 1 in 9 men in the United States. Early screening for prostate cancer often involves monitoring levels of prostate-specific antigen (PSA) and performing digital rectal exams. However, a prostate biopsy is always required for definitive cancer diagnosis. The Early Detection Research Network (EDRN) is a consortium within the National Cancer Institute aimed at improving screening approaches and early detection of cancers. As part of this effort, the Weill Cornell EDRN Prostate Cancer has collected and biobanked specimens from men undergoing a prostate biopsy between 2008 and 2017. In this report, we describe blood metabolomics measurements for a subset of this population. The dataset includes detailed clinical and prospective records for 580 patients who underwent prostate biopsy, 287 of which were subsequentially diagnosed with prostate cancer, combined with profiling of 1,482 metabolites from plasma samples collected at the time of biopsy. We expect this dataset to provide a valuable resource for scientists investigating prostate cancer metabolism.
Weill Cornell Medicine
Last NameKrumsiek
First NameJan
Address1305 York Avenue, New York, NY 10021
Submit Date2023-02-24
Total Subjects580
Num Males580
Analysis Type DetailLC-MS
Release Date2023-09-19
Release Version1
Jan Krumsiek Jan Krumsiek application/zip

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Sample Preparation:

Sampleprep ID:SP002960
Sampleprep Summary:Following receipt, samples were inventoried and immediately stored and maintained at -80oC until processed. Each received sample was assigned a unique identifier, which was used to track all sample handling, tasks, and results. The samples and all derived aliquots were tracked throughout the process via an automated system. On the day of extraction, frozen samples were thawed on ice. Samples were prepared using the automated MicroLab STAR® system (Hamilton Company, Reno, NV). 100 µl of each sample was transferred into a well in a deepwell plate. Prior to extraction, several isotopically labelled standards were added to each sample to ensure accurate extraction of the samples. To remove proteins or dissociate small molecules bound to proteins or trapped in the precipitated protein matrix, proteins were precipitated with 500 µl of methanol under vigorous shaking for 2 minutes in a GenoGrinder 2000 (Glen Mills, Inc, Clifton, NJ) followed by centrifugation for 10 minutes at 680g.