Summary of Study ST003775

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 PR002353. The data can be accessed directly via it's Project DOI: 10.21228/M8GN8T 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.

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Study IDST003775
Study TitleMetabolomics of miR-126 overexpressed leukemic stem cell in inv(16) AML mice
Study TypeUntargeted metabolomics
Study SummaryThe leukemic stem cells (LSCs) utilizes mitochondrial oxidative phosphorylation to meet their energy demands. These LSCs are reportedly overexpress miR-126. To investigate the role of miR126 in LSC metabolism, the study utilizes LC-MS/MS based untargeted metabolomics on Lin-cKit+ cells from inv(16) AML mice (n=3) with miR-126 overexpression and control mice (n=3) compare their metabolome. The study identifies enrichment of metabolites associated with pathways of fatty acid, and lipid metabolism in LSC from inv(16) mice compared to control further suggesting potential contribution of these metabolites as precursors for oxidative phosphorylation via fatty acid oxidation in inv16 mice.
Institute
Translational Genomics Research Institute
Last NamePirrotte
First NamePatrick
Address445 N 5th St, Phoenix, AZ, 85004, USA
Emailppirrotte@tgen.org
Phone614-302-8454
Submit Date2025-02-18
Raw Data AvailableYes
Raw Data File Type(s)mzML, raw(Thermo)
Analysis Type DetailLC-MS
Release Date2025-05-01
Release Version1
Patrick Pirrotte Patrick Pirrotte
https://dx.doi.org/10.21228/M8GN8T
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

Select appropriate tab below to view additional metadata details:

Project:

Project ID:PR002353
Project DOI:doi: 10.21228/M8GN8T
Project Title:miR-126 driven metabolomics in inv(16) AML mouse model
Project Summary:Leukemic stem cells (LSCs) have been shown to more highly express miR-126 in AML (Acute Myeloid Leukemia), and that inhibition reduces LSCs and prolongs subject survival. To further study the mechanism of this, we performed untargeted metabolomics to identify differentially abundant metabolites in inv(16) AML model mice.
Institute:Translational Genomics Research Institute
Last Name:Pirrotte
First Name:Patrick
Address:445 N 5th St, Phoenix, AZ, 85004, USA
Email:ppirrotte@tgen.org
Phone:602-343-8454

Subject:

Subject ID:SU003909
Subject Type:Mammal
Subject Species:Mus musculus
Taxonomy ID:10090
Gender:Male and female

Factors:

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

mb_sample_id local_sample_id Genotype
SA409919T02xCONxCx4498RPposControl
SA409920T03xCONxCx4507HILICnegControl
SA409921T02xCONxCx4498HILICnegControl
SA409922T01xCONxHWx4496HILICnegControl
SA409923T03xCONxCx4507HILICposControl
SA409924T02xCONxCx4498HILICposControl
SA409925T01xCONxHWx4496RPposControl
SA409926T03xCONxCx4507RPnegControl
SA409927T01xCONxHWx4496RPnegControl
SA409928T03xCONxCx4507RPposControl
SA409929T01xCONxHWx4496HILICposControl
SA409930T02xCONxCx4498RPnegControl
SA409931T06xINV16xCHWx4502RPneginv(16)
SA409932T06xINV16xCHWx4502RPposinv(16)
SA409933T04xINV16xCHWx4521HILICposinv(16)
SA409934T04xINV16xCHWx4521RPneginv(16)
SA409935T06xINV16xCHWx4502HILICposinv(16)
SA409936T05xINV16xCHWx4522RPposinv(16)
SA409937T04xINV16xCHWx4521RPposinv(16)
SA409938T05xINV16xCHWx4522RPneginv(16)
SA409939T04xINV16xCHWx4521HILICneginv(16)
SA409940T05xINV16xCHWx4522HILICneginv(16)
SA409941T06xINV16xCHWx4502HILICneginv(16)
SA409942T05xINV16xCHWx4522HILICposinv(16)
Showing results 1 to 24 of 24

Collection:

Collection ID:CO003902
Collection Summary:Cbfb56M/+ (available upon request), miR-126flox/flox (provided by Dr. Calvin J. Kuo, Standford University), and Mx1-Cre (Jackson Laboratory, Stock No. 003556) mice were crossed to generate Cbfb56M/+/miR126flox/flox/Mx1-Cre and Cbfb56M/+/Mx1-Cre mice. CM expression and miR-126 deletion were induced by polyinosinic–polycytidylic acid [poly (I:C)] (InvivoGen, tlrl-picw-250) intraperitoneally (i.p.) treatment with 14 mg/kg/dose every other day for a total of 7 doses. Age-matched and poly (I:C) induced Cbfb56M/+, miR126flox/flox, or Cbfb56M/+/miR126flox/flox littermates were used as controls. Preleukemic analysis was performed at 6 weeks after the last dose of poly (I:C) injection. Cohorts of CM-AML mice were generated via tail vein i.v. injection into sublethally irradiated (X-RAD 320-Precision X-Ray; 4.5 Gy) 6–8 week-old syngenic C57BL/6 wild-type mice (wt, both female and male). BM mononuclear cells were collected from femurs, tibias, and pelvis using a mortar and pestle. Leukemic stem and progenitor cells (Lin-ckit+; L-K+) from Cbfb-MYH11 (hereafter CM) knock-in mice (Cbfb56M/+//Mx1-Cre) which have a high level of miR-126 were enriched using EasySep™ negative selection reagents. Enriched Lin-ckit+ cell pellet were stored at -80C until metabolomics analysis.
Sample Type:Bone marrow

Treatment:

Treatment ID:TR003918
Treatment Summary:CM expression was induced by polyinosinic–polycytidylic acid [poly (I:C)] intraperitoneally, treatment with 14 mg/kg/dose every other day for a total of 7 doses. Age-matched and poly induced Cbfb56M/+ or Mx1-Cre littermates were used as controls.

Sample Preparation:

Sampleprep ID:SP003915
Sampleprep Summary:Lineage-negative (Lin-) cells were enriched using EasySep™ negative selection reagents. These cells were then stained with fluorescently labeled antibodies in PBS with 0.5% BSA for 15 min at 4°C. After washing, cells were resuspended in PBS with 2% BSA and sorted. After sorting, cells were washed once with PBS and cell pellets were stored in -80. Cells were resuspended in methanol and vortexed for 30s, then subjected to 3 30 second freeze-thaw cycles to lyse them. Lysates were centrifuged and supernatants were split into two aliquots, one for HILIC and one for reverse phase acquisition.

Chromatography:

Chromatography ID:CH004703
Instrument Name:Thermo Orbitrap Fusion Lumos
Column Name:Waters ACQUITY UPLC BEH Amide (100 x 2.1 mm, 1.7 µm)
Column Temperature:45°C
Flow Gradient:99% B for 1 min, 99–85% B for 2 min, 85–75% B for 3 min, 75–30% B for 3 min, 30% B for 1 min
Flow Rate:0.4 mL/min
Solvent A:95% Water/5% Acetonitrile; 10 mM Ammonium acetate
Solvent B:95% Acetonitrile/5% Water; 10 mM Ammonium acetate
Chromatography Type:HILIC
  
Chromatography ID:CH004704
Instrument Name:Thermo Orbitrap Fusion Lumos
Column Name:Hypersil GOLD C18 (150 x 2.1 mm, 1.9 µm)
Column Temperature:45°C
Flow Gradient:100% A for 1min, 100-50% A for 4 min, 50-98% A for 3 min, 98% for 2 min, 100% A for 0.5min, 100% A for 5 min
Flow Rate:0.35 mL/min
Solvent A:100% Water; 0.1% Formic acid
Solvent B:100% Acetonitrile; 0.1% Formic acid
Chromatography Type:Reversed phase

Analysis:

Analysis ID:AN006198
Analysis Type:MS
Chromatography ID:CH004703
Has Mz:1
Has Rt:1
Rt Units:Minutes
Results File:ST003775_AN006198_Results.txt
Units:area
  
Analysis ID:AN006199
Analysis Type:MS
Chromatography ID:CH004703
Has Mz:1
Has Rt:1
Rt Units:Minutes
Results File:ST003775_AN006199_Results.txt
Units:area
  
Analysis ID:AN006200
Analysis Type:MS
Chromatography ID:CH004704
Has Mz:1
Has Rt:1
Rt Units:Minutes
Results File:ST003775_AN006200_Results.txt
Units:area
  
Analysis ID:AN006201
Analysis Type:MS
Chromatography ID:CH004704
Has Mz:1
Has Rt:1
Rt Units:Minutes
Results File:ST003775_AN006201_Results.txt
Units:area
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