Summary of study ST001453

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 PR000993. The data can be accessed directly via it's Project DOI: 10.21228/M8BH7T This work is supported by NIH grant, U2C- DK119886.

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Study IDST001453
Study TitleMetabolomics of lung injury after allogeneic hematopoietic cell transplantation - Liver ICMS
Study Typepreliminary data
Study SummaryAllogeneic hematopoietic cell transplantation (allo-HCT) is a potentially curative treatment option for a variety of hematological malignancies. Interactions between the donor immune system and the patient tissue result in a disease, called GVHD. The pathophysiology of acute GVHD can be hypothesized in three sequential phases: cytokine storm and activation of the antigen-presenting cells (APC), donor T cell activation and effector cell phase. Idiopathic pneumonia syndrome (IPS) is one of the most deleterious complications after allogeneic HCT and is considered not only to be related to conditioning regimen toxicity but also represents an end organ damage caused by allo-reactive T cells, therefore making the lung susceptible to a two-pronged attack, one of which overlaps with GVHD causing other target organ injury. IPS results in mortality of up to 90% of patients. We will use a murine model of IPS and GVHD which is well established in our group, and in which disease evolves either across disparities in major histocompatibility complex (MCH) class I and II, minor histocompatibility antigens (miHags) or both. Metabolomics changes following syngeneic and allogeneic HCT at post-transplantation Days +7 (cytokine storm phase) and Days +42 (cellular effector phase) are compared to baseline wild-type (naive) controls. Prior to analysis, naïve - and experimental mice (N=3 from each group) were fed with semi-liquid diet supplemented with tracers (13C6-glucose ) over 24 hours. At the end of 7 days or 42 days, respectively, feces and aGVHD target organs (colon, liver and lung) were collected from all groups and further processed and / or analyzed. We expect to reveal metabolic pathways affected after allo-HCT which contribute to immune cell mediated lung injury (IPS) and will potentially identify different metabolic pathways in other GVHD target organs.
Institute
University of Kentucky
DepartmentMCC
Last NameHildebrandt
First NameGerhard
AddressCTW-453, 900 South Limestone street. UKY. Lexington, Kentucky-40536
Emailgerhard.hildebrandt@uky.edu
Phone800-333-8874
Submit Date2020-08-21
Raw Data AvailableYes
Raw Data File Type(s).raw
Analysis Type DetailLC-MS
Release Date2020-09-10
Release Version1
Gerhard Hildebrandt Gerhard Hildebrandt
https://dx.doi.org/10.21228/M8BH7T
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

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Project:

Project ID:PR000993
Project DOI:doi: 10.21228/M8BH7T
Project Title:Metabolomics of lung injury after allogeneic hematopoietic cell transplantation
Institute:University of Kentucky
Department:Markey Cancer Center
Last Name:Hildebrandt
First Name:Gerhard
Address:Gerhard C. Hildebrandt, MD, Room no. CC401A, Ben Roach Building, Markey Cancer Center University of Kentucky, Lexington, 40536
Email:gerhard.hildebrandt@uky.edu
Phone:800-333-8874

Subject:

Subject ID:SU001527
Subject Type:Mammal
Subject Species:Mus musculus
Taxonomy ID:10090

Factors:

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

mb_sample_id local_sample_id Treatment Protocol
SA12411813_C1-1_Liver_allogenic_7days_170427_UKy_GCH_rep1-polar-ICMS_Aallogenic
SA12411914_C1-2_Liver_allogenic_7days_170427_UKy_GCH_rep2-polar-ICMS_Aallogenic
SA12412007_C1-1_Liver_allogenic_42days_170427_UKy_GCH_rep1-polar-ICMS_Aallogenic
SA12412109_C2-0_Liver_allogenic_42days_170427_UKy_GCH_rep1-polar-ICMS_Aallogenic
SA12412215_C1-20_Liver_allogenic_7days_170427_UKy_GCH_rep3-polar-ICMS_Aallogenic
SA12412308_C1-2_Liver_allogenic_42days_170427_UKy_GCH_rep2-polar-ICMS_Aallogenic
SA12412403_A2_Liver_naive_0days_170427_UKy_GCH_rep3-polar-ICMS_Anaive
SA12412502_A1_Liver_naive_0days_170427_UKy_GCH_rep2-polar-ICMS_Anaive
SA12412601_A0_Liver_naive_0days_170427_UKy_GCH_rep1-polar-ICMS_Anaive
SA12412704_B0_Liver_syngenic_42days_170427_UKy_GCH_rep1-polar-ICMS_Asyngenic
SA12412811_B1-1_Liver_syngenic_7days_170427_UKy_GCH_rep2-polar-ICMS_Asyngenic
SA12412912_B1-2_Liver_syngenic_7days_170427_UKy_GCH_rep3-polar-ICMS_Asyngenic
SA12413010_B1-0_Liver_syngenic_7days_170427_UKy_GCH_rep1-polar-ICMS_Asyngenic
SA12413105_B1_Liver_syngenic_42days_170427_UKy_GCH_rep2-polar-ICMS_Asyngenic
SA12413206_B2_Liver_syngenic_42days_170427_UKy_GCH_rep3-polar-ICMS_Asyngenic
Showing results 1 to 15 of 15

Collection:

Collection ID:CO001522
Collection Summary:Mouse is sacrificed and tissues are harvested.
Collection Protocol ID:mouse_tissue_collection
Sample Type:Multiple tissues

Treatment:

Treatment ID:TR001542
Treatment Summary:Mouse with allogenic bone marrow transplant. Fed with semi-liquid diet supplemented with fully labeled glucose for 24 hours before harvest. Mouse with no treatment. Fed with semi-liquid diet supplemented with fully labeled glucose for 24 hours before harvest. Mouse with syngenic bone marrow transplant. Fed with semi-liquid diet supplemented with fully labeled glucose for 24 hours before harvest.
Treatment Protocol ID:allogenic naive syngenic

Sample Preparation:

Sampleprep ID:SP001535
Sampleprep Summary:Tissue is frozen in liquid nitrogen to stop metabolic processes. Polar extraction from homogenate, lypholized, and frozen. Protein extraction and quantification. Before going into the IC-FTMS the frozen sample is reconstituted in water. Frozen tissue is ground in a SPEX grinder under liquid nitrogen to homogenize the sample.
Sampleprep Protocol ID:frozen_tissue_grind; IC-FTMS_preparation; protein_extraction; polar_extraction; tissue_quench
Sampleprep Protocol Filename:4D_17Jun4_Fan_Prot_Quant.pdf
4B_Extract_Polar_Lipid_Prot_Fan_070417.pdf

Combined analysis:

Analysis ID
Analysis type
Chromatography type
Chromatography system
Column
MS Type
MS instrument type
MS instrument name
Ion Mode
Units

Chromatography:

Chromatography ID:CH001785
Chromatography Summary:Targeted IC
Instrument Name:Thermo Dionex ICS-5000+
Column Name:Dionex IonPac AS11-HC-4um 2 mm i.d. x 250 mm
Chromatography Type:Targeted IC

MS:

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