Summary of Study ST001446
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.
See: https://www.metabolomicsworkbench.org/about/howtocite.php
| Study ID | ST001446 |
| Study Title | Metabolomics of lung injury after allogeneic hematopoietic cell transplantation - Colon NMR HSQC |
| Study Type | preliminary data |
| Study Summary | Allogeneic 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 |
| Department | MCC |
| Last Name | Hildebrandt |
| First Name | Gerhard |
| Address | CTW-453, 900 South Limestone street. UKY. Lexington, Kentucky-40536 |
| gerhard.hildebrandt@uky.edu | |
| Phone | 800-333-8874 |
| Submit Date | 2020-08-14 |
| Raw Data Available | Yes |
| Raw Data File Type(s) | fid |
| Analysis Type Detail | NMR |
| Release Date | 2020-09-10 |
| Release Version | 1 |
Select appropriate tab below to view additional metadata details:
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: | SU001520 |
| Subject Type: | Mouse |
| Subject Species: | Mus musculus |
| Taxonomy ID: | 10090 |
| Species Group: | Mammals |
Factors:
Subject type: Mouse; Subject species: Mus musculus (Factor headings shown in green)
| mb_sample_id | local_sample_id | Treatment Protocol |
|---|---|---|
| SA123742 | 15_C1-20_Colon_allogenic_7days_170427_UKy_GCH_rep3-polar-NMR_A | allogenic |
| SA123743 | 08_C1-2_Colon_allogenic_42days_170427_UKy_GCH_rep2-polar-NMR_A | allogenic |
| SA123744 | 07_C1-1_Colon_allogenic_42days_170427_UKy_GCH_rep1-polar-NMR_A | allogenic |
| SA123745 | 13_C1-1_Colon_allogenic_7days_170427_UKy_GCH_rep1-polar-NMR_A | allogenic |
| SA123746 | 09_C2-0_Colon_allogenic_42days_170427_UKy_GCH_rep1-polar-NMR_A | allogenic |
| SA123747 | 14_C1-2_Colon_allogenic_7days_170427_UKy_GCH_rep2-polar-NMR_A | allogenic |
| SA123748 | 03_A2_Colon_naive_0days_170427_UKy_GCH_rep3-polar-NMR_A | naive |
| SA123749 | 01_A0_Colon_naive_0days_170427_UKy_GCH_rep1-polar-NMR_A | naive |
| SA123750 | 02_A1_Colon_naive_0days_170427_UKy_GCH_rep2-polar-NMR_A | naive |
| SA123751 | 06_B2_Colon_syngenic_42days_170427_UKy_GCH_rep3-polar-NMR_A | syngenic |
| SA123752 | 05_B1_Colon_syngenic_42days_170427_UKy_GCH_rep2-polar-NMR_A | syngenic |
| SA123753 | 12_B1-2_Colon_syngenic_7days_170427_UKy_GCH_rep3-polar-NMR_A | syngenic |
| SA123754 | 10_B1-0_Colon_syngenic_7days_170427_UKy_GCH_rep1-polar-NMR_A | syngenic |
| SA123755 | 04_B0_Colon_syngenic_42days_170427_UKy_GCH_rep1-polar-NMR_A | syngenic |
| SA123756 | 11_B1-1_Colon_syngenic_7days_170427_UKy_GCH_rep2-polar-NMR_A | syngenic |
| Showing results 1 to 15 of 15 |
Collection:
| Collection ID: | CO001515 |
| Collection Summary: | Mouse is sacrificed and tissues are harvested. |
| Collection Protocol ID: | mouse_tissue_collection |
| Sample Type: | mouse |
Treatment:
| Treatment ID: | TR001535 |
| 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: | SP001528 |
| Sampleprep Summary: | Frozen tissue is ground in a SPEX grinder under liquid nitrogen to homogenize the sample. Polar extraction from homogenate, lypholized, and frozen. Protein extraction and quantification. Tissue is frozen in liquid nitrogen to stop metabolic processes. |
| Sampleprep Protocol ID: | frozen_tissue_grind polar_extraction protein_extraction tissue_quench |
| Sampleprep Protocol Filename: | 4B_Extract_Polar_Lipid_Prot_Fan_070417.pdf 4D_17Jun4_Fan_Prot_Quant.pdf 4B_Extract_Polar_Lipid_Prot_Fan_070417.pdf |
Analysis:
| Analysis ID: | AN002417 |
| Analysis Type: | NMR |
| Num Factors: | 3 |
| Num Metabolites: | 60 |
| Units: | normalized peak area |
NMR:
| NMR ID: | NM000168 |
| Analysis ID: | AN002417 |
| Instrument Name: | Agilent 600 |
| Instrument Type: | FT-NMR |
| NMR Experiment Type: | HC-HSQC |
| Standard Concentration: | 0.5 mM |
| Spectrometer Frequency: | 600 MHz |
| NMR Probe: | cryogenic triple resonance HCN |
| NMR Solvent: | D20 |
| NMR Tube Size: | 1.7 mm |
| Shimming Method: | gradient shimming |
| Pulse Sequence: | gHSQCAD |
| Water Suppression: | presaturation |
| Chemical Shift Ref Cpd: | DSS |
| Temperature: | 15 celsius |
| Acquisition Time: | 2 s |
| Relaxation Delay: | 4 s |
| Baseline Correction Method: | Bernstein Polynomial |
