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.
See: https://www.metabolomicsworkbench.org/about/howtocite.php
Study ID | ST000327 |
Study Title | Primary metabolites at different points along dog gastrointestinal tract (HILIC chromatography) |
Study 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 |
ofiehn@ucdavis.edu | |
Phone | (530) 754-8258 |
Submit Date | 2015-02-27 |
Num Groups | 8 |
Total Subjects | 48 |
Raw Data Available | Yes |
Raw Data File Type(s) | d |
Analysis Type Detail | LC-MS |
Release Date | 2016-01-27 |
Release Version | 1 |
Select appropriate tab below to view additional metadata details:
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: | Mammals |
Factors:
Subject type: Animal; Subject species: Canis lupus familiaris (Factor headings shown in green)
mb_sample_id | local_sample_id | Organ |
---|---|---|
SA014735 | D_colon | Colon |
SA014736 | E_colon | Colon |
SA014737 | G_colon | Colon |
SA014738 | C_colon | Colon |
SA014739 | F_colon | Colon |
SA014740 | A_colon | Colon |
SA014741 | G_duod | Duodenum |
SA014742 | E_duod | Duodenum |
SA014743 | D_duod | Duodenum |
SA014744 | C_duod | Duodenum |
SA014745 | A_duod | Duodenum |
SA014746 | F_duod | Duodenum |
SA014747 | A_ileum | Ileum |
SA014748 | D_ileum | Ileum |
SA014749 | E_ileum | Ileum |
SA014750 | F_ileum | Ileum |
SA014751 | G_ileum | Ileum |
SA014752 | C_ileum | Ileum |
SA014753 | G_rectum | Rectum |
SA014754 | F_rectum | Rectum |
SA014755 | A_rectum | Rectum |
SA014756 | C_rectum | Rectum |
SA014757 | D_rectum | Rectum |
SA014758 | E_rectum | Rectum |
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 |