Summary of study ST000065

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 PR000058. The data can be accessed directly via it's Project DOI: 10.21228/M80018 This work is supported by NIH grant, U2C- DK119886.

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Study IDST000065
Study TitleMetabolic Profiling of Visceral and Subcutaneous Adipose Tissue from Colorectal Cancer Patients: GC-TOF MS analyis of serum samples
Study Typebiomarker study
Study SummaryThis West Coast Metabolomics Center pilot and feasibility project was granted to Johanna Lampe (Fred Hutchinson Cancer Research Center at Univ. of Washington, Seattle). In the current investigation, unbiased profiling of the metabolome and lipidome of adipose tissue samples (visceral(VAT) and subcutaenous (SAT)) and serum of 50 CRC patients, including stages I-IV, from the Fred Hutchinson Cancer Center (Seattle,WA) and the German Cancer Research Center (Heidelberg, Germany) was conducted. The lipidome and metabolome of adipose tissue (VAT/SAT) and serum were analyzed using established UPLC-QTOFMS analysis and GC-TOFMS analyses, respectively.  The primary objectives of this project were to 1) compare the metabolome and lipidome of matched VAT and SAT adipose tissue of n=50 Colorectal Cancer Cell (CRC) patients, 2) characterize the associations between the lipidome and metabolome in adipose tissue (VAT/SAT) and serum of n=50 CRC patients and 3) test the associations between the lipidome/metabolome of VAT and serum with the tumor stage of CRC patients. 
Institute
University of California, Davis
DepartmentGenome and Biomedical Sciences Facility
LaboratoryWCMC Metabolomics Core
Last NameFiehn
First NameOliver
Address1315 Genome and Biomedical Sciences Facility 451 Health Sciences Drive Davis, CA 95616
Emailofiehn@ucdavis.edu
Phone(530) 754-8258
Submit Date2014-06-11
Num Groups3
Total Subjects65
Raw Data AvailableYes
Raw Data File Type(s)binary files .peG,.cdf, .txt files
Uploaded File Size2.7 G
Analysis Type DetailGC-MS
Release Date2014-07-12
Release Version1
Oliver Fiehn Oliver Fiehn
https://dx.doi.org/10.21228/M80018
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

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Project:

Project ID:PR000058
Project DOI:doi: 10.21228/M80018
Project Title:Metabolic Profiling of Visceral and Subcutaneous Adipose Tissue from Colorectal Cancer Patients: Unraveling the Link Between Adipose Tissue and Cancer
Project Type:biomarker study
Project Summary:This West Coast Metabolomics Center pilot and feasibility project was granted to Johanna Lampe (Fred Hutchinson Cancer Research Center at Univ. of Washington, Seattle). In the current investigation, unbiased profiling of the metabolome and lipidome of adipose tissue samples (visceral(VAT) and subcutaenous (SAT)) and serum of 50 CRC patients, including stages I-IV, from the Fred Hutchinson Cancer Center (Seattle,WA) and the German Cancer Research Center (Heidelberg, Germany) was conducted. The lipidome and metabolome of adipose tissue (VAT/SAT) and serum were analyzed using established UPLC-QTOFMS analysis and GC-TOFMS analyses, respectively. The primary objectives of this project were to 1) compare the metabolome and lipidome of matched VAT and SAT adipose tissue of n=50 Colorectal Cancer Cell (CRC) patients, 2) characterize the associations between the lipidome and metabolome in adipose tissue (VAT/SAT) and serum of n=50 CRC patients and 3) test the associations between the lipidome/metabolome of VAT and serum with the tumor stage of CRC patients.
Institute:University of California, Davis
Department:Genome and Biomedical Sciences Facility
Laboratory:WCMC Metabolomics Core
Last Name:Fiehn
First Name:Oliver
Address:1315 Genome and Biomedical Sciences Facility,451 Health Sciences Drive, Davis, CA 95616
Email:ofiehn@ucdavis.edu
Phone:(530) 754-8258
Funding Source:NIH U24DK097154

Subject:

Subject ID:SU000084
Subject Type:Human
Subject Species:Homo sapiens
Taxonomy ID:9606
Species Group:Human

Factors:

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

mb_sample_id local_sample_id Source
SA003480S41Group 1 - Human Serum
SA003481S18Group 1 - Human Serum
SA003482S8Group 1 - Human Serum
SA003483S16Group 1 - Human Serum
SA003484S36Group 1 - Human Serum
SA003485S2Group 1 - Human Serum
SA003486S55Group 1 - Human Serum
SA003487S26Group 1 - Human Serum
SA003488S54Group 1 - Human Serum
SA003489S14Group 1 - Human Serum
SA003490S37Group 1 - Human Serum
SA003491S30Group 1 - Human Serum
SA003492S23Group 1 - Human Serum
SA003493S45Group 1 - Human Serum
SA003494S3Group 1 - Human Serum
SA003495S43Group 1 - Human Serum
SA003496S42Group 1 - Human Serum
SA003497S35Group 1 - Human Serum
SA003498S38Group 1 - Human Serum
SA003499S22Group 1 - Human Serum
SA003500S4Group 1 - Human Serum
SA003501S17Group 1 - Human Serum
SA003502S6Group 1 - Human Serum
SA003503S57Group 1 - Human Serum
SA003504S48Group 1 - Human Serum
SA003505S58Group 1 - Human Serum
SA003506S1Group 1 - Human Serum
SA003507S29Group 1 - Human Serum
SA003508S7Group 1 - Human Serum
SA003509S59Group 1 - Human Serum
SA003510S53Group 1 - Human Serum
SA003511S51Group 1 - Human Serum
SA003512S32Group 1 - Human Serum
SA003513S34Group 1 - Human Serum
SA003514S39Group 1 - Human Serum
SA003515S44Group 1 - Human Serum
SA003516S11Group 1 - Human Serum
SA003517S5Group 1 - Human Serum
SA003518S15Group 1 - Human Serum
SA003519S13Group 1 - Human Serum
SA003520S47Group 1 - Human Serum
SA003521S56Group 1 - Human Serum
SA003522S12Group 1 - Human Serum
SA003523S10Group 1 - Human Serum
SA003524S28Group 1 - Human Serum
SA003525S25Group 1 - Human Serum
SA003526S52Group 1 - Human Serum
SA003527S31Group 1 - Human Serum
SA003528S40Group 1 - Human Serum
SA003529S19Group 1 - Human Serum
SA003530S24Group 1 - Human Serum
SA003531S50Group 1 - Human Serum
SA003532S9Group 1 - Human Serum
SA003533S20Group 1 - Human Serum
SA003534S33Group 1 - Human Serum
SA003535S46Group 1 - Human Serum
SA003536S27Group 1 - Human Serum
SA003537S21Group 1 - Human Serum
SA003538S49Group 1 - Human Serum
Showing results 1 to 59 of 59

Collection:

Collection ID:CO000067
Sample Type:Adipose tissue

Treatment:

Treatment ID:TR000085

Sample Preparation:

Sampleprep ID:SP000080
Sampleprep Protocol Filename:SOP_Sample_preparation_of_blood_plasma_or_serum_samples_for_GCTOF_analysis.pdf
Sampleprep Protocol Comments:Protocoll-changes.docx
Sample Spiking:FAMEs

Combined analysis:

Analysis ID AN000103
Analysis type MS
Chromatography type GC
Chromatography system Agilent 6890N
Column Restek Corporation Rtx-5Sil MS
MS Type EI
MS instrument type GC-TOF
MS instrument name Leco GC-TOF
Ion Mode POSITIVE
Units Peak area

Chromatography:

Chromatography ID:CH000071
Methods Filename:Data_Dictionary_Fiehn_laboratory_GCTOF_MS_primary_metabolism_10-15-2013_general.pdf
Instrument Name:Agilent 6890N
Column Name:Restek Corporation Rtx-5Sil MS
Column Pressure:7.7 PSI (initial condition)
Column Temperature:50 - 330C
Flow Rate:1 ml/min
Injection Temperature:50C ramped to 250C by 12C/s
Sample Injection:0.5l
Oven Temperature:50C for 1 min, then ramped at 20C/min to 330C, held constant for 5 min
Transferline Temperature:230C
Washing Buffer:Ethyl Acetate
Sample Loop Size:30 m length x 0.25 mm internal diameter
Randomization Order:Excel generated
Chromatography Type:GC

MS:

MS ID:MS000079
Analysis ID:AN000103
Instrument Name:Leco GC-TOF
Instrument Type:GC-TOF
MS Type:EI
Ion Mode:POSITIVE
Ion Source Temperature:250°C
Ionization Energy:70eV
Mass Accuracy:Nominal
Source Temperature:250°C
Scanning Range:80-500 Da
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