Summary of Study ST000057

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 PR000054. The data can be accessed directly via it's Project DOI: 10.21228/M87G65 This work is supported by NIH grant, U2C- DK119886.

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Study IDST000057
Study TitleCombined Metabolomics and Lipidomics of Type 1 Diabetes (GCMS)
Study Typebiomarker study
Study SummaryThis West Coast Metabolomics Center pilot and feasibility project granted to Graeme Bell  (University of Chicago) and collaborator Manami Hara uses a multi-omics approach to investigate the metabolome (primary metabolites), lipidome (complex lipids) and signaling lipids (oxylipins) in the plasma of Non-obese Diabetic (NOD) mice which progressed to Type 1 Diabetes Mellitus (T1D) and those that did not. NOD Mice (n=71) were assessed as diabetic or non-diabetic based on their fasting (4hr) blood glucose levels at sacrifice, which defined 30 hyperglycemic (glucose = 250 mg/dL) and 41 normoglycemic animals. The primary objective of this study was to identify candidate biomarkers associated with beta-cell destruction/survival and T1D progression.
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 Groups8
Total Subjects75
Raw Data AvailableYes
Raw Data File Type(s)cdf
Uploaded File Size4.6 G
Analysis Type DetailGC-MS
Release Date2017-12-14
Release Version1
Oliver Fiehn Oliver Fiehn
https://dx.doi.org/10.21228/M87G65
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

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Project:

Project ID:PR000054
Project DOI:doi: 10.21228/M87G65
Project Title:Combined Metabolomics and Lipidomics of Type 1 Diabetes
Project Type:MS study
Project Summary:This West Coast Metabolomics Center pilot and feasibility project granted to Graeme Bell  (University of Chicago) and collaborator Manami Hara uses a multi-omics approach to investigate the metabolome (primary metabolites), lipidome (complex lipids) and signaling lipids (oxylipins) in the plasma of Non-obese Diabetic (NOD) mice which progressed to Type 1 Diabetes Mellitus (T1D) and those that did not. NOD Mice (n=71) were assessed as diabetic or non-diabetic based on their fasting (4hr) blood glucose levels at sacrifice, which defined 30 hyperglycemic (glucose = 250 mg/dL) and 41 normoglycemic animals. The primary objective of this study was to identify candidate biomarkers associated with beta-cell destruction/survival and T1D progression.
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:SU000076
Subject Type:Animal
Subject Species:Mus musculus
Taxonomy ID:10090
Species Group:Mammal

Factors:

Subject type: Animal; Subject species: Mus musculus (Factor headings shown in green)

mb_sample_id local_sample_id Diagnosis
SA003012 131125dlvsa13_1Diabetic
SA003013 131124dlvsa10_1Diabetic
SA003014 131125dlvsa10_1Diabetic
SA003015 131125dlvsa11_1Diabetic
SA003016 131124dlvsa36_1Diabetic
SA003017 131124dlvsa48_1Diabetic
SA003018 131124dlvsa41_1Diabetic
SA003019 131124dlvsa05_2Diabetic
SA003020 131124dlvsa12_1Diabetic
SA003021 131124dlvsa16_1Diabetic
SA003022 131124dlvsa23_1Diabetic
SA003023 131124dlvsa17_1Diabetic
SA003024 131125dlvsa05_1Diabetic
SA003025 131124dlvsa34_1Diabetic
SA003026 131124dlvsa30_1Diabetic
SA003027 131124dlvsa40_1Diabetic
SA003028 131124dlvsa28_1Diabetic
SA003029 131124dlvsa08_1Diabetic
SA003030 131125dlvsa20_1Diabetic
SA003031 131124dlvsa15_2Diabetic
SA003032 131125dlvsa12_1Diabetic
SA003033 131124dlvsa19_1Diabetic
SA003034 131124dlvsa06_1Diabetic
SA003035 131124dlvsa32_1Diabetic
SA003036 131124dlvsa35_1Diabetic
SA003037 131124dlvsa14_1Diabetic
SA003038 131124dlvsa44_1Diabetic
SA003039 131125dlvsa19_1Diabetic
SA003040 131124dlvsa11_2Diabetic
SA003041 131124dlvsa03_1Diabetic
SA002971 131124dlvsa24_1Non-diabetic
SA002972 131124dlvsa25_1Non-diabetic
SA002973 131125dlvsa14_1Non-diabetic
SA002974 131124dlvsa43_1Non-diabetic
SA002975 131125dlvsa09_1Non-diabetic
SA002976 131125dlvsa16_1Non-diabetic
SA002977 131124dlvsa42_1Non-diabetic
SA002978 131124dlvsa37_1Non-diabetic
SA002979 131124dlvsa45_1Non-diabetic
SA002980 131125dlvsa01_1Non-diabetic
SA002981 131125dlvsa15_1Non-diabetic
SA002982 131124dlvsa26_1Non-diabetic
SA002983 131124dlvsa33_1Non-diabetic
SA002984 131124dlvsa02_1Non-diabetic
SA002985 131125dlvsa18_1Non-diabetic
SA002986 131124dlvsa46_1Non-diabetic
SA002987 131125dlvsa03_1Non-diabetic
SA002988 131124dlvsa21_1Non-diabetic
SA002989 131124dlvsa09_1Non-diabetic
SA002990 131124dlvsa38_1Non-diabetic
SA002991 131124dlvsa13_1Non-diabetic
SA002992 131124dlvsa20_1Non-diabetic
SA002993 131124dlvsa01_1Non-diabetic
SA002994 131125dlvsa08_1Non-diabetic
SA002995 131124dlvsa18_1Non-diabetic
SA002996 131125dlvsa04_1Non-diabetic
SA002997 131124dlvsa29_1Non-diabetic
SA002998 131124dlvsa50_1Non-diabetic
SA002999 131124dlvsa39_1Non-diabetic
SA003000 131125dlvsa07_1Non-diabetic
SA003001 131125dlvsa02_1Non-diabetic
SA003002 131125dlvsa21_1Non-diabetic
SA003003 131124dlvsa31_2Non-diabetic
SA003004 131124dlvsa04_1Non-diabetic
SA003005 131125dlvsa17_1Non-diabetic
SA003006 131124dlvsa47_1Non-diabetic
SA003007 131125dlvsa06_1Non-diabetic
SA003008 131124dlvsa22_1Non-diabetic
SA003009 131124dlvsa07_1Non-diabetic
SA003010 131124dlvsa27_1Non-diabetic
SA003011 131124dlvsa49_1Non-diabetic
Showing results 1 to 71 of 71

Collection:

Collection ID:CO000059
Collection Summary:-

Treatment:

Treatment ID:TR000077

Sample Preparation:

Sampleprep ID:SP000072
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 AN000095
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:CH000063
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:MS000071
Analysis ID:AN000095
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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