Summary of Study ST002147

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 IDST002147
Study TitleMetabolomic differences detected in female C57BL/6 mice
Study SummaryMice were euthanized at 20 weeks of age, and humeri were obtained for metabolomic analyses. Once obtained, marrow was flushed in some humeri resulting in 3 sample types 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 Groups3
Total Subjects10
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:SU002233
Subject Type:Mammal
Subject Species:Mus musculus
Taxonomy ID:10090
Genotype Strain:C57Bl/6
Age Or Age Range:20 weeks (at euthanasia)
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
SA205820MV23F bone_marrow
SA205821MV24F bone_marrow
SA205822MV22F bone_marrow
SA205823MV21F bone_marrow
SA205824MV19F bone_marrow
SA205825MV18F bone_marrow
SA205826MV17F bone_marrow
SA205827MV25F bone_marrow
SA205828MV26F bone_marrow
SA205829MV20F bone_marrow
SA205830MV4F isolated_bone
SA205831MV3F isolated_bone
SA205832MV2F isolated_bone
SA205833MV5F isolated_bone
SA205834MV6F isolated_bone
SA205835MV8F isolated_bone
SA205836MV7F isolated_bone
SA205837MV1F isolated_bone
SA205838MV14F whole_bone
SA205839MV10F whole_bone
SA205840MV9F whole_bone
SA205841MV11F whole_bone
SA205842MV12F whole_bone
SA205843MV15F whole_bone
SA205844MV13F whole_bone
SA205845MV16F whole_bone
Showing results 1 to 26 of 26


Collection ID:CO002226
Collection Summary:Samples were collected following mouse euthanasia. The humerus was obtained and bone marrow was flushed resulting in 3 groups: isolated bone, bone marrow, and whole bone (has intact marrow).
Sample Type:Bone and bone marrow


Treatment ID:TR002245
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 differences in metabolism between musculoskeletal tissues.

Sample Preparation:

Sampleprep ID:SP002239
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 AN003516
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:CH002596
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:MS003274
Analysis ID:AN003516
Instrument Name:Agilent 6538 QTOF
Instrument Type:Single quadrupole
MS Comments:-