Summary of Study ST002958

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 PR001840. The data can be accessed directly via it's Project DOI: 10.21228/M8W13F 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 IDST002958
Study TitleLipidomic analysis of demyelination and remyelination in the Plp1-iCKO-Myrf mouse model of demyelination
Study SummaryIn this study, we obtained a longitudinal lipidomic profile of the brain, spinal cord, and serum using a genetic mouse model of demyelination, known as Plp1-iCKO-Myrf mice. This model has distinct phases of demyelination and remyelination over the course of 24 weeks, in which loss of motor function peaks during demyelination.
University of Kansas
Last NameHartley
First NameMeredith
Address2030 Becker Drive, Room 220F
Submit Date2023-10-31
Raw Data AvailableYes
Raw Data File Type(s)mzXML
Analysis Type DetailLC-MS
Release Date2023-11-17
Release Version1
Meredith Hartley Meredith Hartley application/zip

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Project ID:PR001840
Project DOI:doi: 10.21228/M8W13F
Project Title:Lipidomic analysis of demyelination and remyelination in brain and spinal cord
Project Summary:In this study, we obtained a longitudinal lipidomic profile of the brain, spinal cord, and serum using a genetic mouse model of demyelination, known as Plp1-iCKO-Myrf mice. This model has distinct phases of demyelination and remyelination over the course of 24 weeks, in which loss of motor function peaks during demyelination.
Institute:University of Kansas
Last Name:Hartley
First Name:Meredith
Address:2030 Becker Drive, Room 220F


Subject ID:SU003071
Subject Type:Mammal
Subject Species:Mus musculus
Taxonomy ID:10090


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

mb_sample_id local_sample_id Tissue Genotype Timepoint Treatment
SA322098QC10_brainBrain N/A N/A N/A
SA322099QC09_brainBrain N/A N/A N/A
SA322100QC05_brainBrain N/A N/A N/A
SA322101QC02_brainBrain N/A N/A N/A
SA322102QC03_brainBrain N/A N/A N/A
SA322103QC01_brainBrain N/A N/A N/A
SA322104QC06_brainBrain N/A N/A N/A
SA322105QC17_brainBrain N/A N/A N/A
SA322106QC07_brainBrain N/A N/A N/A
SA322107QC08_brainBrain N/A N/A N/A
SA322108IS11_brainBrain N/A N/A N/A
SA322109IS12_brainBrain N/A N/A N/A
SA322110QC12_brainBrain N/A N/A N/A
SA322111QC11_brainBrain N/A N/A N/A
SA322112QC13_brainBrain N/A N/A N/A
SA322113QC14_brainBrain N/A N/A N/A
SA322114QC15_brainBrain N/A N/A N/A
SA322115IS02_brainBrain N/A N/A N/A
SA322116IS01_brainBrain N/A N/A N/A
SA322117IS03_brainBrain N/A N/A N/A
SA322118IS04_brainBrain N/A N/A N/A
SA322119IS09_brainBrain N/A N/A N/A
SA322120IS10_brainBrain N/A N/A N/A
SA322121QC04_brainBrain N/A N/A N/A
SA322122IS08_brainBrain N/A N/A N/A
SA322123IS07_brainBrain N/A N/A N/A
SA322124IS05_brainBrain N/A N/A N/A
SA322125IS06_brainBrain N/A N/A N/A
SA322126QC16_brainBrain N/A N/A N/A
SA322070234-3857_brainBrain - Week 12 Control
SA322071234-3855_brainBrain - Week 12 Control
SA322072234-3856_brainBrain - Week 12 Control
SA322073263-3953_brainBrain - Week 12 Control
SA322074263-3954_brainBrain - Week 12 Control
SA322020231-3846_brainBrain + Week 12 Control
SA322021231-3847_brainBrain + Week 12 Control
SA322022231-3848_brainBrain + Week 12 Control
SA322023212-3751_brainBrain + Week 12 Control
SA322024231-3849_brainBrain + Week 12 Control
SA322025212-3750_brainBrain + Week 12 Control
SA322026212-3748_brainBrain + Week 12 Control
SA322027212-3749_brainBrain + Week 12 Control
SA322075243-3894_brainBrain - Week 12 SobAM2
SA322076249-3916_brainBrain - Week 12 SobAM2
SA322077244-3897_brainBrain - Week 12 SobAM2
SA322078252-3929_brainBrain - Week 12 SobAM2
SA322079244-3896_brainBrain - Week 12 SobAM2
SA322080243-3895_brainBrain - Week 12 SobAM2
SA322028247-3905_brainBrain + Week 12 SobAM2
SA322029242-3893_brainBrain + Week 12 SobAM2
SA322030247-3906_brainBrain + Week 12 SobAM2
SA322031251-3921_brainBrain + Week 12 SobAM2
SA322032242-3892_brainBrain + Week 12 SobAM2
SA322033251-3924_brainBrain + Week 12 SobAM2
SA322034251-3922_brainBrain + Week 12 SobAM2
SA322035232-3854_brainBrain + Week 12 SobAM2
SA322036232-3853_brainBrain + Week 12 SobAM2
SA322037232-3852_brainBrain + Week 12 SobAM2
SA322081219-3787_brainBrain - Week 18 Control
SA322082218-3777_brainBrain - Week 18 Control
SA322083218-3779_brainBrain - Week 18 Control
SA322084219-3784_brainBrain - Week 18 Control
SA322085219-3786_brainBrain - Week 18 Control
SA322086218-3778_brainBrain - Week 18 Control
SA322038212-3745_brainBrain + Week 18 Control
SA322039212-3746_brainBrain + Week 18 Control
SA322040219-3785_brainBrain + Week 18 Control
SA322041212-3744_brainBrain + Week 18 Control
SA322042212-3747_brainBrain + Week 18 Control
SA322043219-3788_brainBrain + Week 18 Control
SA322044211-3742_brainBrain + Week 18 Control
SA322045211-3743_brainBrain + Week 18 Control
SA322087241-3885_brainBrain - Week 18 SobAM2
SA322088252-3925_brainBrain - Week 18 SobAM2
SA322089241-3887_brainBrain - Week 18 SobAM2
SA322090252-3927_brainBrain - Week 18 SobAM2
SA322046235-3858_brainBrain + Week 18 SobAM2
SA322047232-3851_brainBrain + Week 18 SobAM2
SA322048232-3850_brainBrain + Week 18 SobAM2
SA322049235-3859_brainBrain + Week 18 SobAM2
SA322050236-3864_brainBrain + Week 18 SobAM2
SA322051242-3890_brainBrain + Week 18 SobAM2
SA322052241-3889_brainBrain + Week 18 SobAM2
SA322053241-3888_brainBrain + Week 18 SobAM2
SA322054236-3865_brainBrain + Week 18 SobAM2
SA322091140-652_brainBrain - Week 24 Control
SA322092139-647_brainBrain - Week 24 Control
SA322093139-646_brainBrain - Week 24 Control
SA322094197-3659_brainBrain - Week 24 Control
SA322055139-648_brainBrain + Week 24 Control
SA322056139-649_brainBrain + Week 24 Control
SA322057197-3658_brainBrain + Week 24 Control
SA322058197-3663_brainBrain + Week 24 Control
SA322059198-3660_brainBrain + Week 24 Control
SA322060206-3708_brainBrain + Week 24 Control
SA322061206-3709_brainBrain + Week 24 Control
SA322095263-3956_brainBrain - Week 6 Control
SA322096263-3955_brainBrain - Week 6 Control
SA322097220-3789_brainBrain - Week 6 Control
SA322062235-3861_brainBrain + Week 6 Control
Showing page 1 of 4     Results:    1  2  3  4  Next     Showing results 1 to 100 of 305


Collection ID:CO003064
Collection Summary:Euthanasia was performed by carbon dioxide inhalation and cervical dislocation, and serum, brain, and spinal cord tissues were collected immediately, frozen on dry ice, and stored at -80 °C until processing.
Sample Type:Brain; Spinal cord; Serum


Treatment ID:TR003080
Treatment Summary:Plp1-iCKO-Myrf mice were randomly assigned into the control or Sob-AM2 treatment groups. Both Cre negative mice, which do not lose Myrf and undergo demyelination, and Cre positive mice, which do undergo demyelination, were used in all experiments. The control group received control chow (Envigo Teklad 2016 diet) and the Sob-AM2 treatment group received chow containing 420 µg/kg chow of Sob-AM2 (nominal daily dose of 84 µg/kg body weight) starting 2 weeks after tamoxifen injections. Mice on control chow were euthanized at 4 timepoints: 6, 12, 18, and 24 weeks post-tamoxifen injections. Mice treated with Sob-AM2 were euthanized at 12 and 18 weeks post-tamoxifen.

Sample Preparation:

Sampleprep ID:SP003077
Sampleprep Summary:A modified Bligh-Dyer protocol was used to extract lipids from the brain and spinal cord tissue. Brain homogenates (either 300 mg/ml or 50 mg/ml) were prepared with ice cold water using a Bead Mill homogenizer (Bead Ruptor Elite, Omni international, USA). Spinal cord homogenates were prepared at 65 mg/ml in cold water. Immediately after homogenization, the brain homogenates were diluted with cold water (150 µL of 300 mg/ml brain homogenate was mixed with 800 µl of cold water. For the 50 mg/ml brain homogenates, 1 mL of homogenate was used directly. Spinal cord homogenates were diluted 10-fold (100 μl of the spinal cord homogenates with 900 μl of cold water). For all samples, 10 μl of the diluted homogenate was removed and stored at -80°C for protein quantification using a BCA assay. The diluted tissue homogenates were combined with a mixture of chloroform (containing 0.01% butylated hydroxytoluene, BHT): methanol: water (3:2:1) in glass tubes. After shaking and vortexing thoroughly, the mixture was centrifuged (Sorvall ST 40R Centrifuge, Thermo Fisher Scientific) at 1300 rpm for 10 minutes. The lower layer was carefully removed and saved in a glass tube. The remaining top layer was further extracted twice with 1.25 ml chloroform with 0.01% BHT; the lower layers were carefully removed and combined. The combined lower layer was then washed with 300 μl of 1 M KCl followed by 300 μl of water and vacuum dried completely (Savant SpeedVac SPD130DLX vacuum concentrator, Thermo Fisher Scientific, USA) to obtain the dried lipid extract. Serum (3 μl) was added directly to a vial containing 1.2 mL of chloroform: methanol: 300 mM ammonium acetate in water (300:665:35). The contents were mixed thoroughly, and the vials were centrifuged for 5 min at low speed in a clinical centrifuge to pellet proteins before submitting samples to the mass spectrometer.

Combined analysis:

Analysis ID AN004858
Analysis type MS
Chromatography type None (Direct infusion)
Chromatography system Sciex 4000 QTrap
Column none
MS instrument type QTRAP
MS instrument name ABI Sciex API 4000 QTrap
Units nmol per mg tissue wt


Chromatography ID:CH003667
Instrument Name:Sciex 4000 QTrap
Column Name:none
Column Temperature:none
Flow Gradient:none
Flow Rate:none
Solvent A:none
Solvent B:none
Chromatography Type:None (Direct infusion)


MS ID:MS004602
Analysis ID:AN004858
Instrument Name:ABI Sciex API 4000 QTrap
Instrument Type:QTRAP
MS Comments:see Mass_Spectrometry_Parameters.xlsx
Acquisition Parameters File:Mass_Spectrometry_Parameters.xlsx