Summary of Study ST002146

This data is available at the NIH Common Fund's National Metabolomics Data Repository (NMDR) website, the Metabolomics Workbench,, 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.


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.

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Study IDST002146
Study TitleMetabolomic differences detected in C57BL/6 mice
Study SummaryMice 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
Montana State University
Last NameWelhaven
First NameHope
AddressCulbertson Hall, 100
Submit Date2022-04-21
Num Groups2
Total Subjects20
Num Males10
Num Females10
Raw Data AvailableYes
Raw Data File Type(s)mzML
Analysis Type DetailLC-MS
Release Date2022-05-09
Release Version1
Hope Welhaven Hope Welhaven application/zip

Select appropriate tab below to view additional metadata details:


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
Funding Source:National Science Foundation (CMMI 1554708, CMMI 2120239) and the National Institutes of Health (NIAMS R01AR073964, NIGMS P20GM103474, NIH R03AG068680


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


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

mb_sample_id local_sample_id Sex Tissue
SA205800H29F isolated_bone
SA205801H28F isolated_bone
SA205802H36F isolated_bone
SA205803H27F isolated_bone
SA205804H30F isolated_bone
SA205805H31F isolated_bone
SA205806H35F isolated_bone
SA205807H33F isolated_bone
SA205808H34F isolated_bone
SA205809H32F isolated_bone
SA205810H12M isolated_bone
SA205811H11M isolated_bone
SA205812H7M isolated_bone
SA205813H6M isolated_bone
SA205814H10M isolated_bone
SA205815H8M isolated_bone
SA205816H5M isolated_bone
SA205817H9M isolated_bone
SA205818H13M isolated_bone
SA205819H4M isolated_bone
Showing results 1 to 20 of 20


Collection ID:CO002225
Collection Summary:Samples were collected following mouse euthanasia. The humerus was obtained and bone marrow was flushed.
Sample Type:Bone


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 instrument type Single quadrupole
MS instrument name Agilent 6538 QTOF
Units Peak Intensiy


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 ID:MS003273
Analysis ID:AN003515
Instrument Name:Agilent 6538 QTOF
Instrument Type:Single quadrupole
MS Comments:-