Summary of study ST000178

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 PR000153. The data can be accessed directly via it's Project DOI: 10.21228/M8B01C This work is supported by NIH grant, U2C- DK119886.

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Study IDST000178
Study TitleT cell metabolism during graft-versus-host disease (CAB 307)-PART I
Study TypeGlycolysis/TCA/Nucleotide analysis (tissue/cells)
Study SummaryT cells were injected into mice to model graft-versus-host disease. On day 7 after bone marrow transplantation (BMT), cells were recovered and CD8 T cells were purified to > 90% purity over magnetic columns. Naïve T cells were used as control. Cells were then plated at 5x10^6 cells/ml onto plates coated with anti-CD3/CD28 antibodies in the presence of 300µM 13C-palmitate conjugated to BSA (in PBS). Cells were incubated at 37oC for 60min, after which time they were removed from the plates, counted, and an equal number (2.5x10^6) were placed into a 1.7 ml micro-centrifuge tubes and spun down. Cells were washed once with ammonium chloride, residual volume was removed by a second brief spin, cell pellets were flash frozen in liquid nitrogen and stored at -80oC until analysis. Several mice lines were used in this study.
Institute
University of Michigan
DepartmentBiomedical Research Core Facilities
LaboratoryMetabolomics core
Last NameKachman
First NameMaureen
Address6300 Brehm Tower, 1000 Wall Street, Ann Arbor, MI 48105-5714
Email mkachman@umich.edu
Submit Date2015-06-06
Num Groups2
Total Subjects7
Raw Data AvailableYes
Raw Data File Type(s).xml,.xsd,.stg, .bin, .cd,.cG, .m (lcms)
Uploaded File Size867 M
Analysis Type DetailGC/LC-MS
Release Date2016-06-18
Release Version1
Maureen Kachman Maureen Kachman
https://dx.doi.org/10.21228/M8B01C
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

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Project:

Project ID:PR000153
Project DOI:doi: 10.21228/M8B01C
Project Title:Graft-Versus-Host Disease
Project Summary:T cell metabolism during graft-versus-host disease
Institute:University of Michigan
Department:Pediatrics
Laboratory:Ferrara lab
Last Name:Byersdorfer
First Name:Craig
Address:Ann Arbor, MI
Email:craigbye@med.umich.edu
Phone:734-000-0000

Subject:

Subject ID:SU000197
Subject Type:Animal
Subject Species:Mus musculus
Taxonomy ID:10090
Species Group:Mammal

Factors:

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

mb_sample_id local_sample_id Treatment
SA009490S00015099Control
SA009491S00015100Control
SA009492S00015098Control
SA009493S00015097Control
SA009494S00015095GVHD
SA009495S00015096GVHD
SA009496S00015094GVHD
Showing results 1 to 7 of 7

Collection:

Collection ID:CO000184
Sample Type:Cells

Treatment:

Treatment ID:TR000204

Sample Preparation:

Sampleprep ID:SP000198
Sampleprep Protocol Filename:Gly-TCA-nucleotides_analysis_protocol-2015-03-09.docx

Combined analysis:

Analysis ID AN000274 AN000275
Analysis type MS MS
Chromatography type HILIC GC
Chromatography system Agilent 1260 Agilent 7890A
Column Phenomenex Luna NH2 (150 x 1mm, 3um) Agilent DB5-MS (30m × 0.25mm, 0.25um)
MS Type ESI EI
MS instrument type QTOF Single quadrupole
MS instrument name Agilent 6530 QTOF Agilent 5975C
Ion Mode NEGATIVE POSITIVE
Units pmol/µg protein pmol/µg protein

Chromatography:

Chromatography ID:CH000196
Methods ID:AQM020
Methods Filename:QTOF-002-HILIC-35min-1mm.m.zip
Instrument Name:Agilent 1260
Column Name:Phenomenex Luna NH2 (150 x 1mm, 3um)
Chromatography Type:HILIC
  
Chromatography ID:CH001304
Methods ID:AQM011
Methods Filename:ALPHA_KETO_ACIDS-FULL.M.zip
Instrument Name:Agilent 7890A
Column Name:Agilent DB5-MS (30m × 0.25mm, 0.25um)
Chromatography Type:GC

MS:

MS ID:MS000223
Analysis ID:AN000274
Instrument Name:Agilent 6530 QTOF
Instrument Type:QTOF
MS Type:ESI
Ion Mode:NEGATIVE
  
MS ID:MS000224
Analysis ID:AN000275
Instrument Name:Agilent 5975C
Instrument Type:Single quadrupole
MS Type:EI
Ion Mode:POSITIVE
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