Summary of study ST000424

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 PR000269. The data can be accessed directly via it's Project DOI: 10.21228/M81307 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.

Perform statistical analysis  |  Show all samples  |  Show named metabolites  |  Download named metabolite data  |  Download all metabolite data  |  Perform analysis on untargeted data  |  Download mwTab file (text)   |  Download mwTab file(JSON)   |  Download data (Contains raw data)
Study IDST000424
Study TitleMetabolomics Approach to Allograft Assessment in Liver Transplantation (part II)
Study TypeRetrospective analysis of biobanked liver tissue from organ donors
Study SummaryThis pilot study is designed to apply several types of metabolomic analysis for liver allograft assessment with the aim of identifying candidate biomarkers for allograft function and to develop a methodology that could be applied to larger scale studies. The three main categories of metabolomic analysis are reflected in each of the specific aims, including a targeted profiling of central carbon metabolism, open lipidomic and metabolomic profiling for hypothesis generation and MALDI-IMS for tissue-based spatial analysis. Each of these approaches offers potential benefits that could be optimized in a protocol for larger scale studies depending the results of the pilot investigations.
Institute
University of Florida
DepartmentSECIM
Last NameSeal
First NameJohn
Address1514 Jefferson Highway, New Orleans, LA 70121
EmailJohn.Seal@ochsner.org
Phone504-232-4253
Submit Date2016-05-06
Num Groups3
Total Subjects24
Raw Data AvailableYes
Raw Data File Type(s).mzXML
Analysis Type DetailLC-MS
Release Date2017-10-03
Release Version1
John Seal John Seal
https://dx.doi.org/10.21228/M81307
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

Select appropriate tab below to view additional metadata details:


Project:

Project ID:PR000269
Project DOI:doi: 10.21228/M81307
Project Title:Metabolomics approach to allograft assessment in liver transplantation
Project Type:Retrospective analysis of biobank samples
Project Summary:Organ shortage is the primary limiting factor in liver transplantation and has led to expanded utilization of livers from marginal donors. Assessment of liver allograft quality is currently based on clinical factors such as donor age, cause of death, liver function, routine clinical laboratory values and extent of graft steatosis (fat content). Expanded utilization necessitates a more detailed assessment of liver allograft quality to guide decisions regarding suitability for transplantation. Using a metabolomics approach, we plan to capture molecular snapshots of the physiologic state of the graft and to elucidate biomarkers of allograft quality and graft function post-transplant.
Institute:Ochsner Multi-Organ Transplant Institute
Department:Abdominal Organ Transplantation
Last Name:Seal
First Name:John
Address:1514 Jefferson Highway, New Orleans, LA 70121
Email:John.Seal@ochsner.org
Phone:504-232-4253
Funding Source:SECIM Pilot and Feasibility Award

Subject:

Subject ID:SU000445
Subject Type:Human
Subject Species:Homo sapiens
Taxonomy ID:9606
Human Inclusion Criteria:Deceased organ donor with consent for use of tissue for research
Subject Comments:Liver biopsy is routinely performed on livers used for solid organ transplantation. The tissue is from decedent subjects. Consent for use of tissue is obtained at the time of organ donation by the local organ procurement organization.
Species Group:Human

Factors:

Subject type: Human; Subject species: Homo sapiens (Factor headings shown in green)

mb_sample_id local_sample_id DONOR CAUSE OF DEATH SEX Hep C Positive Donor
SA021549118601Anoxia F NO
SA021550115347Anoxia F NO
SA021551114291Anoxia F NO
SA021552116736Anoxia F NO
SA021553115165Anoxia F NO
SA021554121089Anoxia M NO
SA021555121079Anoxia M NO
SA021556120237Anoxia M NO
SA021557120257Anoxia M YES
SA021561121063Cerebrovascular/Stroke F NO
SA021562114647Cerebrovascular/Stroke F NO
SA021563115333Cerebrovascular/Stroke M NO
SA021558121358CVA F NO
SA021559121364CVA M NO
SA021560121356CVA M NO
SA021564121091Trauma F NO
SA021565121095Trauma F NO
SA021566120240Trauma M NO
SA021567116707Trauma M NO
SA021568114300Trauma M NO
SA021569115342Trauma M NO
SA021570117751Trauma M NO
SA021571117323Trauma M NO
SA021572121087Trauma M NO
SA021573116709Trauma M NO
Showing results 1 to 25 of 25

Collection:

Collection ID:CO000439
Collection Summary:A wedge biopsy of the right lobe of the liver is routinely obtained prior to transplantation. The sample is immediately flash frozen in the operating room and subsequently transferred to Ochsner Biobank for sample storage.
Sample Type:Liver Tissue
Collection Method:Open biopsy during cold storage preservation of organ for transplant
Collection Location:Operating room of liver transplant during
Collection Frequency:Single sample prior to transplant
Volumeoramount Collected:~50mg
Storage Conditions:-180 degree C, liquid nitrogen vapor phase
Collection Vials:ThermoScientific CryoTube vials, 1.8mL
Storage Vials:ThermoScientific CryoTube vials, 1.8mL
Collection Tube Temp:-70 degree liguid nitrogen flash freezing

Treatment:

Treatment ID:TR000459
Treatment Summary:Not applicable

Sample Preparation:

Sampleprep ID:SP000452
Sampleprep Summary:see sample prep protocols

Combined analysis:

Analysis ID AN000673 AN000674
Analysis type MS MS
Chromatography type Reversed phase Reversed phase
Chromatography system Thermo Dionex Ultimate 3000 Thermo Dionex Ultimate 3000
Column ACE Excel 2 C18-PFP (100 x 2.1mm, 2um) ACE Excel 2 C18-PFP (100 x 2.1mm, 2um)
MS Type ESI ESI
MS instrument type Orbitrap Orbitrap
MS instrument name Thermo Q Exactive Orbitrap Thermo Q Exactive Orbitrap
Ion Mode POSITIVE NEGATIVE
Units Peak Area Peak Area

Chromatography:

Chromatography ID:CH000486
Chromatography Summary:see protocol
Instrument Name:Thermo Dionex Ultimate 3000
Column Name:ACE Excel 2 C18-PFP (100 x 2.1mm, 2um)
Chromatography Type:Reversed phase

MS:

MS ID:MS000599
Analysis ID:AN000673
Instrument Name:Thermo Q Exactive Orbitrap
Instrument Type:Orbitrap
MS Type:ESI
Ion Mode:POSITIVE
  
MS ID:MS000600
Analysis ID:AN000674
Instrument Name:Thermo Q Exactive Orbitrap
Instrument Type:Orbitrap
MS Type:ESI
Ion Mode:NEGATIVE
  logo