Summary of Study ST001924

This data is available at the NIH Common Fund's National Metabolomics Data Repository (NMDR) website, the Metabolomics Workbench, https://www.metabolomicsworkbench.org, where it has been assigned Project ID PR001214. The data can be accessed directly via it's Project DOI: 10.21228/M8SH7V This work is supported by NIH grant, U2C- DK119886.

See: https://www.metabolomicsworkbench.org/about/howtocite.php

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 IDST001924
Study TitleUrine-Based Metabolomics and Machine Learning Reveals Metabolites Associated with Renal Cell Carcinoma Progression NMR (part-I)
Study SummaryEvery year, hundreds of thousands of cases of renal carcinoma (RCC) are reported worldwide. Accurate staging of the disease is important for treatment and prognosis purposes; however, contemporary methods such as computerized tomography (CT) and biopsies are expensive and prone to sampling errors, respectively. As such, a non-invasive diagnostic assay for staging would be beneficial. This study aims to investigate urine metabolites as potential biomarkers to stage RCC. In the study, we identified a panel of such urine metabolites with machine learning techniques.
Institute
University of Georgia
DepartmentBiochemistry and Molecular Biology
LaboratoryEdison Lab/Fernandez Lab
Last NameBifarin
First NameOlatomiwa
Address315 Riverbend Rd, Athens, GA 30602
Emailolatomiwa.bifarin25@uga.edu
Phone(706) 542-4401 Lab: 1045
Submit Date2021-08-16
Raw Data AvailableYes
Raw Data File Type(s)fid
Analysis Type DetailNMR
Release Date2021-10-18
Release Version1
Olatomiwa Bifarin Olatomiwa Bifarin
https://dx.doi.org/10.21228/M8SH7V
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

Select appropriate tab below to view additional metadata details:

Project:

Project ID:PR001214
Project DOI:doi: 10.21228/M8SH7V
Project Title:Urine-Based Metabolomics and Machine Learning Reveals Metabolites Associated with Renal Cell Carcinoma Progression
Project Type:multi-platform urine-based metabolomics
Project Summary:Every year, hundreds of thousands of cases of renal carcinoma (RCC) are reported worldwide. Accurate staging of the disease is important for treatment and prognosis purposes; however, contemporary methods such as computerized tomography (CT) and biopsies are expensive and prone to sampling errors, respectively. As such, a non-invasive diagnostic assay for staging would be beneficial. This study aims to investigate urine metabolites as potential biomarkers to stage RCC. In the study, we identified a panel of such urine metabolites with machine learning techniques.
Institute:University of Georgia
Department:Biochemistry and Molecular Biology
Laboratory:Fernandez Lab/ Edison Lab
Last Name:Bifarin
First Name:Olatomiwa
Address:315 Riverbend Rd, Athens, GA 30602
Email:olatomiwa.bifarin25@uga.edu
Phone:(706) 542-4401 Lab: 1045

Subject:

Subject ID:SU002002
Subject Type:Human
Subject Species:Homo sapiens
Taxonomy ID:9606
Species Group:Mammals

Factors:

Subject type: Human; Subject species: Homo sapiens (Factor headings shown in green)

mb_sample_id local_sample_id Factor
SA1780182000-
SA1780191000-
SA178020115Early
SA178021136Early
SA178022317Early
SA178023196Early
SA178024217Early
SA178025223Early
SA17802694Early
SA178027162Early
SA17802877Early
SA178029332Early
SA17803023Early
SA178031232Early
SA178032277Early
SA178033102Early
SA178034326Early
SA178035271Early
SA17803630Early
SA178037284Early
SA178038100Early
SA17803964Early
SA178040166Early
SA17804175Early
SA178042221Early
SA17804391Early
SA178044210Early
SA178045116Early
SA178046160Early
SA178047275Early
SA17804889Early
SA17804938Early
SA17805070Early
SA178051171Early
SA178052227Early
SA178053263Early
SA178054341Early
SA178055244Early
SA178056119Early
SA178057282Early
SA1780584Early
SA178059286Early
SA17806084Early
SA178061233Late
SA178062117Late
SA17806332Late
SA178064186Late
SA178065236Late
SA178066167Late
SA178067168Late
SA17806871Late
SA178069156Late
SA178070272Late
SA178071245Late
SA178072142Late
SA178073331Late
SA178074258Late
SA17807527Late
SA178076110Late
SA178077253Late
SA17807882Late
SA17807973Late
SA17808029Late
SA17808126Late
SA178082308Late
SA178083150Late
SA178084105Late
SA178085125Late
SA178086303Late
SA178087175Late
SA17808842Late
SA178089201Late
SA178090153Unknown
SA178091316Unknown
SA178092218Unknown
SA178093230Unknown
SA178094161Unknown
SA178095293Unknown
SA178096262Unknown
SA178097131Unknown
SA1780988Unknown
SA17809979Unknown
SA17810085Unknown
SA1781019Unknown
Showing results 1 to 84 of 84

Collection:

Collection ID:CO001995
Collection Summary:Urine samples were collected at the Emory University Hospital
Collection Protocol Filename:2_Collection_protocol_RCC_AUG2021.docx
Sample Type:Urine

Treatment:

Treatment ID:TR002014
Treatment Summary:There were no treatments in the study, urine samples of renal cell carcinoma patients were collected.

Sample Preparation:

Sampleprep ID:SP002008
Sampleprep Summary:Urine samples were prepared for both NMR and MS experiments
Sampleprep Protocol Filename:3_Sample preparation protocol_RCC_AUG2021.docx
Processing Storage Conditions:-80℃

Analysis:

Analysis ID:AN003127
Laboratory Name:Edison Lab
Analysis Type:NMR
Num Factors:4
Num Metabolites:50
Units:Area Under the Curve

NMR:

NMR ID:NM000215
Analysis ID:AN003127
Instrument Name:Bruker Avance lll
Instrument Type:FT-NMR
NMR Experiment Type:1D-1H
NMR Comments:Analysis protocol is in 4_Analysis protocol_RCC_AUG2021 (section on NMR); detailed acquisition and processing parameters are in 5_NMRAcquisition_RCC_AUG2021.
Spectrometer Frequency:600 MHz
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