Summary of Study ST000269

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 PR000213. The data can be accessed directly via it's Project DOI: 10.21228/M8VP42 This work is supported by NIH grant, U2C- DK119886.

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Study IDST000269
Study TitleDiacylglyceride and Ceramide analysis in TFD mice
Study Typediet/age comparison
Study SummaryMice were fed with a TFD for 8 or 24 weeks to induce NAFLD or NASH, respectively. Targeted analyses examined diacylglycerols and ceramides in 6-8 mice per group with 4 groups including 8 week control, 24 week control, 8 week TFD, and 24 week TFD. Samples were analyzed via UHPLC-HRMS
Institute
University of Florida
DepartmentChemistry
LaboratoryYost Laboratory
Last NamePatterson
First NameRainey
Address214 Leigh Hall, University of Florida, Gainesville, FL 32611
Emailrpatterson@chem.ufl.edu
Phone392-352-0551
Submit Date2015-10-22
Num Groups4
Total Subjects28
Raw Data AvailableNo
Raw Data File Type(s)raw(Thermo)
Analysis Type DetailLC-MS
Release Date2017-07-10
Release Version1
Rainey Patterson Rainey Patterson
https://dx.doi.org/10.21228/M8VP42
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

Select appropriate tab below to view additional metadata details:

Project:

Project ID:PR000213
Project DOI:doi: 10.21228/M8VP42
Project Title:Metabolomic analysis of Nonalcoholic Fatty Liver Disease and Nonalcoholic Steatohepatitis in mice and humans
Project Summary:This project aims to understand the metabolic changes associated with the transition of NAFLD to NASH using a mouse model fed a high trans fat diet. This portion, in particular, focuses on targeted lipidomics, whereas a future portion will be untargeted lipidomics. 
Institute:University of Florida
Department:Chemistry
Laboratory:Yost Laboratory
Last Name:Yost
First Name:Richard
Address:214 Leigh Hall, University of Florida, Gainesville, FL 32611
Email:ryost@ufl.edu
Phone:392-352-0557
Funding Source:National Institutes of Health Grant # U24 DK097209; National Institutes of Health CTSI Grant #UL1 TR000064

Subject:

Subject ID:SU000289
Subject Type:Animal
Subject Species:Mus musculus
Taxonomy ID:10090
Genotype Strain:C57BL/6
Age Or Age Range:8 or 24 week
Gender:male
Animal Animal Supplier:Jackson Laboratories
Animal Feed:Control (Research Diets, Inc. # D09100304) and trans-fat diet (Research Diets, Inc. # D09100301)
Species Group:Mammal

Factors:

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

mb_sample_id local_sample_id Age (weeks) Diet
SA012084QE1_REP_18_0624 Control
SA012085QE1_REP_18_1224 Control
SA012086QE1_REP_18_0924 Control
SA012087QE1_REP_18_1124 Control
SA012088QE1_REP_18_0524 Control
SA012089QE1_REP_18_0124 Control
SA012090QE1_REP_18_1424 Control
SA012091QE1_REP_18_0224 Control
SA012092QE1_REP_18_1324 Trans Fat Diet
SA012093QE1_REP_18_1524 Trans Fat Diet
SA012094QE1_REP_18_0324 Trans Fat Diet
SA012095QE1_REP_18_1024 Trans Fat Diet
SA012096QE1_REP_18_0424 Trans Fat Diet
SA012097QE1_REP_18_0724 Trans Fat Diet
SA012098QE1_REP_18_0824 Trans Fat Diet
SA012099QE1_REP_18_278 Control
SA012100QE1_REP_18_248 Control
SA012101QE1_REP_18_238 Control
SA012102QE1_REP_18_178 Control
SA012103QE1_REP_18_168 Control
SA012104QE1_REP_18_198 Control
SA012105QE1_REP_18_298 Control
SA012106QE1_REP_18_288 Trans Fat Diet
SA012107QE1_REP_18_268 Trans Fat Diet
SA012108QE1_REP_18_208 Trans Fat Diet
SA012109QE1_REP_18_188 Trans Fat Diet
SA012110QE1_REP_18_218 Trans Fat Diet
SA012111QE1_REP_18_228 Trans Fat Diet
SA012112QE1_REP_18_258 Trans Fat Diet
Showing results 1 to 29 of 29

Collection:

Collection ID:CO000283
Collection Summary:-
Sample Type:tissue (liver)
Collection Method:tissue flash frozen in liquid nitrogen immediately after sacrifice

Treatment:

Treatment ID:TR000303
Treatment Summary:Mice were either fed a control diet or high fructose trans-fat diet for 8 or 24 weeks
Treatment Compound:diet (Research Diets, Inc)
Treatment Route:oral
Animal Anesthesia:isoflurane (3% in O2)
Animal Endp Clinical Signs:accompanied histology

Sample Preparation:

Sampleprep ID:SP000297
Sampleprep Summary:Tissues were cryogenically ground prior to beign weighed and homogenized in chloroform and methanol for the Folch extraction
Processing Method:homogenization (zirconium beads, 1.0 mm diameter), lipid extraction
Processing Storage Conditions:Liquid nitrogen and on ice
Extraction Method:Folch
Extract Storage:-80C
Sample Resuspension:isopropanol
Sample Spiking:Internal Standards: Cer(d18:1/17:0) and d5-DAG (20:2/20:2) and d5-DG (20:5/20:5)
Organ:liver

Combined analysis:

Analysis ID AN000431
Analysis type MS
Chromatography type Reversed phase
Chromatography system Thermo Dionex Ultimate 3000
Column Waters Acquity BEH C18 (50 x 2.1mm,1.7um)
MS Type ESI
MS instrument type Orbitrap
MS instrument name Thermo Q Exactive Orbitrap
Ion Mode POSITIVE
Units nmol/g liver protein

Chromatography:

Chromatography ID:CH000301
Chromatography Summary:Waters Acquity BEH C18 (2.1 x 50 mm, 1.7 um) with guard was used to separate compounds with mobile phases made of isopropanol, acetonitrile, and water.
Methods Filename:REP_18
Instrument Name:Thermo Dionex Ultimate 3000
Column Name:Waters Acquity BEH C18 (50 x 2.1mm,1.7um)
Column Temperature:30 C
Flow Gradient:32% B to 98% B over 18 mins
Flow Rate:0.5 mL/min
Injection Temperature:4 C
Solvent A:40% water/60% acetonitrile; 0.1% formic acid; 10 mM ammonium formate
Solvent B:90% isopropanol/10% acetonitrile; 0.1% formic acid; 10 mM ammonium formate
Analytical Time:18 mins
Capillary Voltage:350 C
Time Program:0-1 min: 32%B --> 1-1.5 min: 40% B --> 4 min: 45% B --> 5 min: 50% B --> 8 min: 60% B --> 11 min: 70% B --> 14 min: 80% B --> 16-17 min: 100%B --> 18 min: 32%B --> 21 min: 32% B
Strong Wash Solvent Name:1:1:1 isopropanol:acetonitrile:water
Strong Wash Volume:100 uL
Chromatography Type:Reversed phase

MS:

MS ID:MS000372
Analysis ID:AN000431
Instrument Name:Thermo Q Exactive Orbitrap
Instrument Type:Orbitrap
MS Type:ESI
Ion Mode:POSITIVE
Capillary Temperature:300
Dry Gas Flow:30
Ion Source Temperature:350
Ion Spray Voltage:3500
Mass Accuracy:3 ppm
Automatic Gain Control:3000000
Desolvation Temperature:350
Resolution Setting:17500
Scan Range Moverz:150-2000
Acquisition Parameters File:REP_18
Processing Parameters File:REP_18_sequence_processing
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