Summary of Study ST000285

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 PR000227. The data can be accessed directly via it's Project DOI: 10.21228/M89P43 This work is supported by NIH grant, U2C- DK119886.

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Study IDST000285
Study TitleNMR-based Metabolomics for CRC Diagnosis
Study TypeDisease Diagnosis
Study SummaryDespite the fact that colorectal cancer (CRC) is one of the most prevalent and deadly cancers in the world, the development of improved and robust biomarkers to enable screening, surveillance, and therapy monitoring of CRC continues to be evasive. In particular, patients with colon polyps are at higher risk of developing colon cancer; however, noninvasive methods to identify these patients suffer from poor performance. In consideration of the challenges involved in identifying metabolite biomarkers in individuals with high risk for colon cancer, we have investigated NMR-based metabolite profiling in combination with numerous demographic parameters to investigate the ability of serum metabolites to differentiate polyp/CRC patients from healthy subjects. We also investigated the effect of disease risk on different groups of biologically related metabolites. Our study may explain some of the challenges and promise a novel avenue for future metabolite profiling methodologies.
Institute
University of Washington
DepartmentAnesthesiology and Pain Medicine
LaboratoryNorthwest Metabolomics Research Center
Last NameGu
First NameHaiwei
Address850 Republican St., Seattle WA 98109
Emaildraftery@uw.edu
Phone206-543-9709
Submit Date2016-12-17
Num Groups3
Total Subjects233
Analysis Type DetailNMR
Release Date2015-12-21
Release Version1
Haiwei Gu Haiwei Gu
https://dx.doi.org/10.21228/M89P43
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

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Project:

Project ID:PR000227
Project DOI:doi: 10.21228/M89P43
Project Title:NMR-based Metabolomics for CRC Diagnosis
Project Type:NMR study
Project Summary:Despite the fact that colorectal cancer (CRC) is one of the most prevalent and deadly cancers in the world, the development of improved and robust biomarkers to enable screening, surveillance, and therapy monitoring of CRC continues to be evasive. In particular, patients with colon polyps are at higher risk of developing colon cancer; however, noninvasive methods to identify these patients suffer from poor performance. In consideration of the challenges involved in identifying metabolite biomarkers in individuals with high risk for colon cancer, we have investigated NMR-based metabolite profiling in combination with numerous demographic parameters to investigate the ability of serum metabolites to differentiate polyp/CRC patients from healthy subjects. We also investigated the effect of disease risk on different groups of biologically related metabolites. Our study may explain some of the challenges and promise a novel avenue for future metabolite profiling methodologies.
Institute:University of Washington
Department:Anesthesiology and Pain Medicine
Laboratory:Northwest Metabolomics Research Center
Last Name:Raftery
First Name:Daniel
Address:850 Republican St., Seattle WA 98109
Email:draftery@uw.edu
Phone:206-543-9709

Subject:

Subject ID:SU000305
Subject Type:Human
Subject Species:Homo sapiens
Taxonomy ID:9606
Age Or Age Range:21-86
Weight Or Weight Range:45-172 kg
Height Or Height Range:137-200 cm
Gender:64 M and 63 F
Human Ethnicity:Indicated in the Study Design
Human Smoking Status:Indicated in the Study Design
Human Alcohol Drug Use:Indicated in the Study Design
Species Group:Human

Factors:

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

mb_sample_id local_sample_id Disease type
SA012561416Colorectal Cancer
SA012562411Colorectal Cancer
SA012563410Colorectal Cancer
SA012564417Colorectal Cancer
SA012565421Colorectal Cancer
SA012566425Colorectal Cancer
SA012567422Colorectal Cancer
SA012568152Colorectal Cancer
SA012569419Colorectal Cancer
SA012570154Colorectal Cancer
SA012571403Colorectal Cancer
SA012572168Colorectal Cancer
SA012573389Colorectal Cancer
SA012574162Colorectal Cancer
SA012575157Colorectal Cancer
SA012576408Colorectal Cancer
SA012577156Colorectal Cancer
SA012578427Colorectal Cancer
SA012579431Colorectal Cancer
SA012580115Colorectal Cancer
SA012581448Colorectal Cancer
SA012582447Colorectal Cancer
SA012583452Colorectal Cancer
SA012584454Colorectal Cancer
SA012585457Colorectal Cancer
SA012586109Colorectal Cancer
SA012587455Colorectal Cancer
SA012588444Colorectal Cancer
SA012589122Colorectal Cancer
SA012590133Colorectal Cancer
SA012591434Colorectal Cancer
SA012592173Colorectal Cancer
SA012593132Colorectal Cancer
SA012594435Colorectal Cancer
SA012595440Colorectal Cancer
SA012596125Colorectal Cancer
SA012597429Colorectal Cancer
SA012598388Colorectal Cancer
SA012599285Colorectal Cancer
SA012600253Colorectal Cancer
SA012601284Colorectal Cancer
SA012602250Colorectal Cancer
SA012603289Colorectal Cancer
SA012604295Colorectal Cancer
SA012605292Colorectal Cancer
SA012606291Colorectal Cancer
SA012607283Colorectal Cancer
SA012608257Colorectal Cancer
SA012609263Colorectal Cancer
SA012610277Colorectal Cancer
SA012611276Colorectal Cancer
SA012612278Colorectal Cancer
SA012613279Colorectal Cancer
SA012614282Colorectal Cancer
SA012615281Colorectal Cancer
SA012616300Colorectal Cancer
SA012617304Colorectal Cancer
SA012618355Colorectal Cancer
SA012619200Colorectal Cancer
SA012620354Colorectal Cancer
SA012621357Colorectal Cancer
SA012622193Colorectal Cancer
SA012623177Colorectal Cancer
SA012624187Colorectal Cancer
SA012625202Colorectal Cancer
SA012626343Colorectal Cancer
SA012627320Colorectal Cancer
SA012628312Colorectal Cancer
SA012629310Colorectal Cancer
SA012630322Colorectal Cancer
SA012631325Colorectal Cancer
SA012632214Colorectal Cancer
SA012633332Colorectal Cancer
SA012634469Colorectal Cancer
SA012635139Colorectal Cancer
SA012636514Colorectal Cancer
SA012637512Colorectal Cancer
SA012638515Colorectal Cancer
SA012639516Colorectal Cancer
SA012640517Colorectal Cancer
SA01264126Colorectal Cancer
SA012642511Colorectal Cancer
SA01264324Colorectal Cancer
SA012644508Colorectal Cancer
SA012645509Colorectal Cancer
SA012646510Colorectal Cancer
SA012647518Colorectal Cancer
SA012648519Colorectal Cancer
SA012649555Colorectal Cancer
SA012650561Colorectal Cancer
SA012651562Colorectal Cancer
SA012652575Colorectal Cancer
SA01265334Colorectal Cancer
SA01265449Colorectal Cancer
SA012655520Colorectal Cancer
SA012656521Colorectal Cancer
SA01265753Colorectal Cancer
SA01265828Colorectal Cancer
SA01265977Colorectal Cancer
SA012660513Colorectal Cancer
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Collection:

Collection ID:CO000299
Collection Summary:Serum samples from patients with CRC, polyps, and matched healthy controls were obtained from the Indiana University School of Medicine. Following the IRB protocol approved by both Indiana and Purdue Universities, patients undergoing colonoscopy for CRC screening were evaluated and blood from the consented patients was obtained after overnight fasting and bowel preparation but prior to colonoscopy. Blood samples were allowed to clot at room temperature for 45 min and then centrifuged at 2000 rpm for 10 min. The sera were collected, and aliquoted into separate vials, then transported to Purdue University over dry ice and stored at -80°C until used for analysis.
Sample Type:Blood
Blood Serum Or Plasma:Serum

Treatment:

Treatment ID:TR000319
Treatment Summary:No treatment
Human Fasting:Overnight

Sample Preparation:

Sampleprep ID:SP000313
Sampleprep Summary:Each frozen serum sample was thawed and vortexed; 530 µL aliquots were mixed with 5 µL sodium azide solution (5% in H2O). The resulting solution was centrifuged, and 530 µL was transferred to a 5 mm NMR tube. A coaxial capillary containing 60 µL TSP (20.9 nmol) in D2O was placed into the NMR tube to serve as a chemical shift and quantitative reference. The samples were randomized before performing the NMR experiments.

Analysis:

Analysis ID:AN000453
Analysis Type:NMR
Num Factors:3

NMR:

NMR ID:NM000059
Analysis ID:AN000453
Instrument Name:Bruker Avance III
Instrument Type:FT-NMR
NMR Experiment Type:1D 1H
Spectrometer Frequency:500 MHz
NMR Probe:HCN cryogenic probe
NMR Solvent:D2O
NMR Tube Size:5 mm
Pulse Sequence:CPMG, NOESY
Chemical Shift Ref Cpd:TSP
Temperature:25C
Number Of Scans:128
Spectral Width:6000 Hz
Num Data Points Acquired:16K
Line Broadening:0.5 Hz
Binned Increment:0.00587
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