Summary of Study ST002146
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 PR001360. The data can be accessed directly via it's Project DOI: 10.21228/M8XD72 This work is supported by NIH grant, U2C- DK119886.
See: https://www.metabolomicsworkbench.org/about/howtocite.php
This study contains a large results data set and is not available in the mwTab file. It is only available for download via FTP as data file(s) here.
| Study ID | ST002146 |
| Study Title | Metabolomic differences detected in C57BL/6 mice |
| Study Summary | Mice were euthanized at 20 weeks of age, and various tissues were obtained for metabolomic analyses including whole bone, bone marrow, and isolated cortical bone. Metabolites were extracted and underwent LC-MS analysis using an Agilent LC 1290 coupled to an Agilent 6538 QTOF |
| Institute | Montana State University |
| Last Name | Welhaven |
| First Name | Hope |
| Address | Culbertson Hall, 100 |
| hwelhaven@gmail.com | |
| Phone | 4066961526 |
| Submit Date | 2022-04-21 |
| Num Groups | 2 |
| Total Subjects | 20 |
| Num Males | 10 |
| Num Females | 10 |
| Raw Data Available | Yes |
| Raw Data File Type(s) | mzML |
| Analysis Type Detail | LC-MS |
| Release Date | 2022-05-09 |
| Release Version | 1 |
Select appropriate tab below to view additional metadata details:
Project:
| Project ID: | PR001360 |
| Project DOI: | doi: 10.21228/M8XD72 |
| Project Title: | Welhaven_JBMR+_data |
| Project Summary: | This experiment investigated metabolomic differences between male and female musculoskeletal tissues. |
| Institute: | Montana State University |
| Last Name: | Welhaven |
| First Name: | Hope |
| Address: | Culbertson Hall, 100 |
| Email: | hwelhaven@gmail.com |
| Phone: | 4066961526 |
| Funding Source: | National Science Foundation (CMMI 1554708, CMMI 2120239) and the National Institutes of Health (NIAMS R01AR073964, NIGMS P20GM103474, NIH R03AG068680 |
Subject:
| Subject ID: | SU002232 |
| Subject Type: | Mammal |
| Subject Species: | Mus musculus |
| Taxonomy ID: | 10090 |
| Genotype Strain: | C57Bl/6 |
| Age Or Age Range: | 20 weeks (at euthanasia) |
| Gender: | Male and female |
| Animal Animal Supplier: | Jackson Labratories |
| Animal Light Cycle: | Standard light dark cycle |
| Animal Feed: | PicoLab Rodent Diet 20, 20% protein |
| Species Group: | Mammals |
Factors:
Subject type: Mammal; Subject species: Mus musculus (Factor headings shown in green)
| mb_sample_id | local_sample_id | Sex | Tissue |
|---|---|---|---|
| SA205800 | H29 | F | isolated_bone |
| SA205801 | H28 | F | isolated_bone |
| SA205802 | H36 | F | isolated_bone |
| SA205803 | H27 | F | isolated_bone |
| SA205804 | H30 | F | isolated_bone |
| SA205805 | H31 | F | isolated_bone |
| SA205806 | H35 | F | isolated_bone |
| SA205807 | H33 | F | isolated_bone |
| SA205808 | H34 | F | isolated_bone |
| SA205809 | H32 | F | isolated_bone |
| SA205810 | H12 | M | isolated_bone |
| SA205811 | H11 | M | isolated_bone |
| SA205812 | H7 | M | isolated_bone |
| SA205813 | H6 | M | isolated_bone |
| SA205814 | H10 | M | isolated_bone |
| SA205815 | H8 | M | isolated_bone |
| SA205816 | H5 | M | isolated_bone |
| SA205817 | H9 | M | isolated_bone |
| SA205818 | H13 | M | isolated_bone |
| SA205819 | H4 | M | isolated_bone |
| Showing results 1 to 20 of 20 |
Collection:
| Collection ID: | CO002225 |
| Collection Summary: | Samples were collected following mouse euthanasia. The humerus was obtained and bone marrow was flushed. |
| Sample Type: | Bone |
Treatment:
| Treatment ID: | TR002244 |
| Treatment Summary: | Mice were housed at Montana State University after being obtained from Jackson labs. During this time, mice were kept on a light/dark cycle and fed a standard chow diet ad libitum. Upon 20 weeks of age, mice were euthanized. No additional factors such as injury, diet, or exercise occurred. Mice were simply used to analyze sex differences as well as differences in metabolism between musculoskeletal tissues. |
Sample Preparation:
| Sampleprep ID: | SP002238 |
| Sampleprep Summary: | Once euthanized, tissues were dissected and harvested. Samples underwent a methanol:acetone extraction and underwent rounds of centrifugation. Once metabolites were isolated, samples were dried via vacuum concentration and resuspended with acetonitrile:water for LC-MS analysis. |
Combined analysis:
| Analysis ID | AN003515 |
|---|---|
| Analysis type | MS |
| Chromatography type | HILIC |
| Chromatography system | Agilent 6538 |
| Column | Cogent Diamond Hydride HILIC (150 × 2.1 mm) |
| MS Type | ESI |
| MS instrument type | QTOF |
| MS instrument name | Agilent 6538 QTOF |
| Ion Mode | POSITIVE |
| Units | Peak Intensiy |
Chromatography:
| Chromatography ID: | CH002595 |
| Chromatography Summary: | Samples were analyzed using an Agilent 1290 UPLC coupled to an Agilent 6538 QTOF. All samples were run in normal phase using a Cogent Diamond Hydride HILIC column (150 x 2.1 mm). Solvents: 0.1% formic acid in water (A), 0.1% formic acid in acetonitrile (B). Elution gradient: 100 to 25% solvent B over 17 minutes, 0 to 70% solvent A over 20 minutes, at 21 minutes, B increases from 25% to 100% till 25 minutes while A decreases from 70% to 0% till 25 minutes. The last 4 minutes act as a wash. Total run time = 25 minute method (per sample) |
| Instrument Name: | Agilent 6538 |
| Column Name: | Cogent Diamond Hydride HILIC (150 × 2.1 mm) |
| Flow Gradient: | 100 to 25% solvent B over 17 minutes, 0 to 70% solvent A over 20 minutes, at 21 minutes, B increases from 25% to 100% till 25 minutes while A decreases from 70% to 0% till 25 minutes. The last 4 minutes act as a wash. |
| Solvent A: | 100% water; 0.1% formic acid |
| Solvent B: | 100% acetonitrile; 0.1% formic acid |
| Chromatography Type: | HILIC |
MS:
| MS ID: | MS003273 |
| Analysis ID: | AN003515 |
| Instrument Name: | Agilent 6538 QTOF |
| Instrument Type: | QTOF |
| MS Type: | ESI |
| MS Comments: | - |
| Ion Mode: | POSITIVE |
