Summary of Study ST000327

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 PR000263. The data can be accessed directly via it's Project DOI: 10.21228/M8SK5S This work is supported by NIH grant, U2C- DK119886.

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Study IDST000327
Study TitlePrimary metabolites at different points along dog gastrointestinal tract (HILIC chromatography)
Study SummaryThis experiment tests the primary metabolites at four different points along the gastrointestinal tract of a dog. The four points being tested were the duodenum, ileum, colon, and rectum.
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 Date2015-02-27
Num Groups8
Total Subjects48
Raw Data AvailableYes
Raw Data File Type(s)d
Analysis Type DetailLC-MS
Release Date2016-01-27
Release Version1
Oliver Fiehn Oliver Fiehn
https://dx.doi.org/10.21228/M8SK5S
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

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Project:

Project ID:PR000263
Project DOI:doi: 10.21228/M8SK5S
Project Title:Primary metabolites at different points along dog gastrointestinal tract
Project Summary:This experiment tests the primary metabolites at four different points along the gastrointestinal tract of a dog. The four points being tested were the duodenum, ileum, colon, and rectum.
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:U24DK097154

Subject:

Subject ID:SU000347
Subject Type:Animal
Subject Species:Canis lupus familiaris
Taxonomy ID:9615
Species Group:Mammal

Factors:

Subject type: Animal; Subject species: Canis lupus familiaris (Factor headings shown in green)

mb_sample_id local_sample_id Organ
SA014735D_colonColon
SA014736E_colonColon
SA014737G_colonColon
SA014738C_colonColon
SA014739F_colonColon
SA014740A_colonColon
SA014741G_duodDuodenum
SA014742E_duodDuodenum
SA014743D_duodDuodenum
SA014744C_duodDuodenum
SA014745A_duodDuodenum
SA014746F_duodDuodenum
SA014747A_ileumIleum
SA014748D_ileumIleum
SA014749E_ileumIleum
SA014750F_ileumIleum
SA014751G_ileumIleum
SA014752C_ileumIleum
SA014753G_rectumRectum
SA014754F_rectumRectum
SA014755A_rectumRectum
SA014756C_rectumRectum
SA014757D_rectumRectum
SA014758E_rectumRectum
Showing results 1 to 24 of 24

Collection:

Collection ID:CO000341
Collection Summary:Samples were collected from dogs euthanized for an unrelated reason. From 6 different dogs, samples were taken from 4 different sites along the gastrointestinal tract (callingthese treatments). Samples were frozen at 80, then thawed to aliquot into 100mg portions, and refrozen at 80 and shipped on dry ice. No other preparation/additives.
Collection Protocol Comments:StudyDesign-JuliaHonneffer-101614.pdf
Sample Type:Duodenum

Treatment:

Treatment ID:TR000361
Treatment Summary:Different sites along the gastrointestinal tract (duodenum, ileum, colon, rectum).
Treatment Protocol Filename:StudyDesign-JuliaHonneffer-101614.pdf

Sample Preparation:

Sampleprep ID:SP000355
Sampleprep Summary:-

Combined analysis:

Analysis ID AN000521 AN000522
Analysis type MS MS
Chromatography type HILIC HILIC
Chromatography system Unspecified Unspecified
Column Waters Acquity BEH Amide (150 x 2.1mm,1.7um) Waters Acquity BEH Amide (150 x 2.1mm,1.7um)
MS Type ESI ESI
MS instrument type QTOF QTOF
MS instrument name Agilent 6530 QTOF Agilent 6550 QTOF
Ion Mode POSITIVE NEGATIVE
Units Peak height Peak height

Chromatography:

Chromatography ID:CH000365
Chromatography Summary:UPLC
Methods Filename:Data_Dictionary_Fiehn_laboratory_HILIC_QTOF_MS.pdf
Instrument Name:Unspecified
Column Name:Waters Acquity BEH Amide (150 x 2.1mm,1.7um)
Column Pressure:200-700 bar
Column Temperature:45 C
Flow Gradient:100% B to 30% B
Flow Rate:0.4 mL/min
Internal Standard:See data dictionary
Retention Time:See data dictionary
Sample Injection:3 uL
Analytical Time:14 min
Capillary Voltage:4500
Time Program:16.75 min
Weak Wash Solvent Name:1:1 ACN:H2O
Weak Wash Volume:5 seconds
Strong Wash Solvent Name:1:1 ACN:H2O
Target Sample Temperature:Autosampler temp 4 C
Randomization Order:Excel
Chromatography Type:HILIC

MS:

MS ID:MS000457
Analysis ID:AN000521
Instrument Name:Agilent 6530 QTOF
Instrument Type:QTOF
MS Type:ESI
MS Comments:Lipidomics runs are MS1 data; Identifications made from pooled MS/MS runs
Ion Mode:POSITIVE
Capillary Voltage:3500
Collision Gas:Nitrogen
Dry Gas Flow:8 l/min
Dry Gas Temp:325
Fragment Voltage:120
Fragmentation Method:Auto MS/MS
Ion Source Temperature:325
Ion Spray Voltage:1000
Ionization:Pos
Precursor Type:Intact Molecule
Reagent Gas:Nitrogen
Source Temperature:325 C
Desolvation Gas Flow:11 l/min
Desolvation Temperature:350 C
Nebulizer:35 psig
Octpole Voltage:750
Resolution Setting:Extended Dynamic Range
Scan Range Moverz:60-1700 Da
Scanning Cycle:2 Hz
Scanning Range:60-1700 Da
Skimmer Voltage:65
  
MS ID:MS000458
Analysis ID:AN000522
Instrument Name:Agilent 6550 QTOF
Instrument Type:QTOF
MS Type:ESI
Ion Mode:NEGATIVE
Capillary Voltage:3500
Collision Gas:Nitrogen
Dry Gas Flow:8 l/min
Dry Gas Temp:325
Fragment Voltage:120
Fragmentation Method:Auto MS/MS
Ion Source Temperature:325
Ion Spray Voltage:1000
Ionization:Pos
Precursor Type:Intact Molecule
Reagent Gas:Nitrogen
Source Temperature:325 C
Desolvation Gas Flow:11 l/min
Desolvation Temperature:350 C
Nebulizer:35 psig
Octpole Voltage:750
Resolution Setting:Extended Dynamic Range
Scan Range Moverz:60-1700 Da
Scanning Cycle:2 Hz
Scanning Range:60-1700 Da
Skimmer Voltage:65
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