Summary of Study ST000061

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 IDST000061
Study TitleMetabolic Profiling of Visceral and Subcutaneous Adipose Tissue from Colorectal Cancer Patients: GC-TOF MS analyis of subcutaneous and visceral adipose tissue 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 Subjects130
Study Comments2014-03-05 17:49:16.898
Raw Data AvailableYes
Raw Data File Type(s)cdf
Uploaded File Size5.4 G
Analysis Type DetailGC-MS
Release Date2014-07-11
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:SU000080
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
SA003106SAT_10Group 1 - Subcutaenous Fat
SA003107SAT_28Group 1 - Subcutaenous Fat
SA003108SAT_25Group 1 - Subcutaenous Fat
SA003109SAT_15Group 1 - Subcutaenous Fat
SA003110SAT_51Group 1 - Subcutaenous Fat
SA003111SAT_21Group 1 - Subcutaenous Fat
SA003112SAT_44Group 1 - Subcutaenous Fat
SA003113SAT_48Group 1 - Subcutaenous Fat
SA003114SAT_43Group 1 - Subcutaenous Fat
SA003115SAT_8Group 1 - Subcutaenous Fat
SA003116SAT_35Group 1 - Subcutaenous Fat
SA003117SAT_45Group 1 - Subcutaenous Fat
SA003118SAT_36Group 1 - Subcutaenous Fat
SA003119SAT_11Group 1 - Subcutaenous Fat
SA003120SAT_31Group 1 - Subcutaenous Fat
SA003121SAT_52Group 1 - Subcutaenous Fat
SA003122SAT_13Group 1 - Subcutaenous Fat
SA003123SAT_41Group 1 - Subcutaenous Fat
SA003124SAT_54Group 1 - Subcutaenous Fat
SA003125SAT_22Group 1 - Subcutaenous Fat
SA003126SAT_3Group 1 - Subcutaenous Fat
SA003127SAT_49Group 1 - Subcutaenous Fat
SA003128SAT_37Group 1 - Subcutaenous Fat
SA003129SAT_23Group 1 - Subcutaenous Fat
SA003130SAT_40Group 1 - Subcutaenous Fat
SA003131SAT_27Group 1 - Subcutaenous Fat
SA003132SAT_53Group 1 - Subcutaenous Fat
SA003133SAT_20Group 1 - Subcutaenous Fat
SA003134SAT_16Group 1 - Subcutaenous Fat
SA003135SAT_58Group 1 - Subcutaenous Fat
SA003136SAT_34Group 1 - Subcutaenous Fat
SA003137SAT_1Group 1 - Subcutaenous Fat
SA003138SAT_24Group 1 - Subcutaenous Fat
SA003139SAT_55Group 1 - Subcutaenous Fat
SA003140SAT_17Group 1 - Subcutaenous Fat
SA003141SAT_46Group 1 - Subcutaenous Fat
SA003142SAT_6Group 1 - Subcutaenous Fat
SA003143SAT_29Group 1 - Subcutaenous Fat
SA003144SAT_4Group 1 - Subcutaenous Fat
SA003145SAT_2Group 1 - Subcutaenous Fat
SA003146SAT_12Group 1 - Subcutaenous Fat
SA003147SAT_56Group 1 - Subcutaenous Fat
SA003148SAT_33Group 1 - Subcutaenous Fat
SA003149SAT_30Group 1 - Subcutaenous Fat
SA003150SAT_26Group 1 - Subcutaenous Fat
SA003151SAT_38Group 1 - Subcutaenous Fat
SA003152SAT_9Group 1 - Subcutaenous Fat
SA003153SAT_18Group 1 - Subcutaenous Fat
SA003154SAT_32Group 1 - Subcutaenous Fat
SA003155SAT_14Group 1 - Subcutaenous Fat
SA003156SAT_47Group 1 - Subcutaenous Fat
SA003157SAT_50Group 1 - Subcutaenous Fat
SA003158SAT_19Group 1 - Subcutaenous Fat
SA003159SAT_5Group 1 - Subcutaenous Fat
SA003160SAT_57Group 1 - Subcutaenous Fat
SA003161SAT_39Group 1 - Subcutaenous Fat
SA003162SAT_7Group 1 - Subcutaenous Fat
SA003163SAT_42Group 1 - Subcutaenous Fat
SA003164SAT_59Group 1 - Subcutaenous Fat
SA003165VAT__35Group 2 - Visceral Fat
SA003166VAT__8Group 2 - Visceral Fat
SA003167VAT__49Group 2 - Visceral Fat
SA003168VAT__34Group 2 - Visceral Fat
SA003169VAT__42Group 2 - Visceral Fat
SA003170VAT__10Group 2 - Visceral Fat
SA003171VAT__15Group 2 - Visceral Fat
SA003172VAT__17Group 2 - Visceral Fat
SA003173VAT__50Group 2 - Visceral Fat
SA003174VAT__52Group 2 - Visceral Fat
SA003175VAT__39Group 2 - Visceral Fat
SA003176VAT__4Group 2 - Visceral Fat
SA003177VAT__48Group 2 - Visceral Fat
SA003178VAT__19Group 2 - Visceral Fat
SA003179VAT__41Group 2 - Visceral Fat
SA003180VAT__16Group 2 - Visceral Fat
SA003181VAT__24Group 2 - Visceral Fat
SA003182VAT__6Group 2 - Visceral Fat
SA003183VAT__23Group 2 - Visceral Fat
SA003184VAT__3Group 2 - Visceral Fat
SA003185VAT__47Group 2 - Visceral Fat
SA003186VAT__31Group 2 - Visceral Fat
SA003187VAT__36Group 2 - Visceral Fat
SA003188VAT__40Group 2 - Visceral Fat
SA003189VAT__37Group 2 - Visceral Fat
SA003190VAT__46Group 2 - Visceral Fat
SA003191VAT__5Group 2 - Visceral Fat
SA003192VAT__56Group 2 - Visceral Fat
SA003193VAT__13Group 2 - Visceral Fat
SA003194VAT__44Group 2 - Visceral Fat
SA003195VAT__58Group 2 - Visceral Fat
SA003196VAT__54Group 2 - Visceral Fat
SA003197VAT__11Group 2 - Visceral Fat
SA003198VAT__51Group 2 - Visceral Fat
SA003199VAT__12Group 2 - Visceral Fat
SA003200VAT__43Group 2 - Visceral Fat
SA003201VAT__45Group 2 - Visceral Fat
SA003202VAT__29Group 2 - Visceral Fat
SA003203VAT__30Group 2 - Visceral Fat
SA003204VAT__32Group 2 - Visceral Fat
SA003205VAT__9Group 2 - Visceral Fat
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Collection:

Collection ID:CO000063
Collection Summary:-
Sample Type:Adipose tissue

Treatment:

Treatment ID:TR000081
Treatment Protocol Filename:Protocol_for_primary_metabolites_lampe_trial_1_0214.docx
Treatment Protocol Comments:Protocoll-changes.docx

Sample Preparation:

Sampleprep ID:SP000076
Sampleprep Summary:-
Sampleprep Protocol Filename:Data_Dictionary_Fiehn_laboratory_GCTOF_MS_primary_metabolism_10-15-2013_general.pdf
Sample Spiking:FAMEs

Combined analysis:

Analysis ID AN000099
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:CH000067
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:MS000075
Analysis ID:AN000099
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
Acquisition Parameters File:Data_Dictionary_Fiehn_laboratory_GCTOF_MS_primary_metabolism_10-15-2013_general.pdf
Processing Parameters File:Data_Dictionary_Fiehn_laboratory_GCTOF_MS_primary_metabolism_10-15-2013_general.pdf
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