Summary of Study ST000337

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.

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Study IDST000337
Study TitleMetabolomics Approach to Allograft Assessment in Liver Transplantation
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
Ochsner Multi-Organ Transplant Institute
DepartmentSECIM
LaboratoryAbdominal Organ Transplantation
Last NameSeal
First NameJohn
Address1514 Jefferson Highway, New Orleans, LA 70121
EmailJohn.Seal@ochsner.org
Phone504-232-4253
Submit Date2016-01-17
Num Groups3
Total SubjectsTargeted analysis and open profiling: Control group - standard criteria donor (N=15); Experimental group - donation-after-cardiac-death donors (N=10). MALDI-IMS - standard criteria donor (N=10)
Raw Data File Type(s)raw(Thermo), d
Analysis Type DetailLC-MS
Release Date2017-01-17
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:SU000357
Subject Type:Human
Subject Species:Homo sapiens
Taxonomy ID:9606
Genotype Strain:Not applicable
Age Or Age Range:Variable
Weight Or Weight Range:Variable
Height Or Height Range:Variable
Gender:Variable
Human Race:Variable
Human Ethnicity:Variable
Human Trial Type:Not applicable
Human Lifestyle Factors:Not applicable
Human Medications:Not applicable
Human Prescription Otc:Not applicable
Human Smoking Status:Not applicable
Human Alcohol Drug Use:Not applicable
Human Nutrition:Not applicable
Human Inclusion Criteria:Deceased organ donor with consent for use of tissue for research
Human Exclusion Criteria:None
Animal Animal Supplier:in house/in house
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:Mammals

Factors:

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

mb_sample_id local_sample_id DONOR CAUSE OF DEATH
SA015046121089Anoxia
SA015047114291Anoxia
SA015048118601Anoxia
SA015049121079Anoxia
SA015050115347Anoxia
SA015051120257Anoxia
SA015052116736Anoxia
SA015053115165Anoxia
SA015054120237Anoxia
SA015058115333Cerebrovascular/Stroke
SA015059121063Cerebrovascular/Stroke
SA015060114647Cerebrovascular/Stroke
SA015055121364CVA
SA015056121358CVA
SA015057121356CVA
SA015061115342Trauma
SA015062116707Trauma
SA015063117751Trauma
SA015064114300Trauma
SA015065121095Trauma
SA015066121087Trauma
SA015067117323Trauma
SA015068120240Trauma
SA015069121091Trauma
SA015070116709Trauma
Showing results 1 to 25 of 25

Collection:

Collection ID:CO000351
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
Collection Duration:Not applicable
Collection Time:Not applicable
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
Additives:None
Blood Serum Or Plasma:N/A
Tissue Cell Identification:N/A
Tissue Cell Quantity Taken:N/A

Treatment:

Treatment ID:TR000371
Treatment Summary:Not Applicable
Treatment Protocol ID:Not Applicable
Treatment Protocol Filename:Not Applicable
Treatment Protocol Comments:Not Applicable
Treatment:Not Applicable
Treatment Compound:Not Applicable
Treatment Route:Not Applicable
Treatment Dose:Not Applicable
Treatment Dosevolume:Not Applicable
Treatment Doseduration:Not Applicable
Treatment Vehicle:Not Applicable

Sample Preparation:

Sampleprep ID:SP001183
Sampleprep Summary:Amino acid assay|CoA assay|NAD-ATP assay|NADH assay|Organic acid assay
Sampleprep Protocol Filename:SB_AA_Assay.pdf
SB_CoA_Assay.pdf
SB_NAD-ATP_Assay_Agilent.pdf
SB_NADH_Assay_Agilent.pdf
SB_OA_Assay.pdf

Combined analysis:

Analysis ID AN000544 AN000545 AN000546 AN000547 AN000548
Analysis type MS MS MS MS MS
Chromatography type Reversed phase Reversed phase Reversed phase Reversed phase Reversed phase
Chromatography system Agilent 1290 Infinity Agilent 1290 Infinity Agilent 1290 Infinity Agilent 1290 Infinity Thermo Dionex Ultimate 3000
Column Waters AccQ Tag (100 x 2mm,1.7um) Waters Acquity BEH C18 (50 x 2mm,1.7um) Thermo Hypercarb (50 x 2.1mm,3um) Waters Acquity HSS T3 (100 x 2.1mm,1.8um) Waters Acquity BEH C18 (100 x 2mm,1.7um)
MS Type ESI ESI ESI ESI ESI
MS instrument type Triple quadrupole Triple quadrupole Triple quadrupole Triple quadrupole Triple quadrupole
MS instrument name Agilent 6490 QQQ Agilent 6490 QQQ Agilent 6490 QQQ Agilent 6490 QQQ Thermo Quantiva QQQ
Ion Mode POSITIVE POSITIVE POSITIVE POSITIVE POSITIVE
Units nmol/mg dry powder pmol/mg dry powder nmol/mg dry powder nmol/mg dry powder nmol/mg dry powder

Chromatography:

Chromatography ID:CH000381
Chromatography Summary:Amino acid assay
Methods Filename:SB_AA_Assay.pdf
Instrument Name:Agilent 1290 Infinity
Column Name:Waters AccQ Tag (100 x 2mm,1.7um)
Column Temperature:55
Flow Rate:0.7 mL/min
Solvent A:AccQ·Tag Eluent A
Solvent B:accQ·Tag Eluent B
Chromatography Type:Reversed phase
  
Chromatography ID:CH000382
Chromatography Summary:CoA assay
Methods Filename:SB_CoA_Assay.pdf
Instrument Name:Agilent 1290 Infinity
Column Name:Waters Acquity BEH C18 (50 x 2mm,1.7um)
Chromatography Type:Reversed phase
  
Chromatography ID:CH000383
Chromatography Summary:NAD-ATP assay
Methods Filename:SB_NAD-ATP_Assay_Agilent.pdf
Instrument Name:Agilent 1290 Infinity
Column Name:Thermo Hypercarb (50 x 2.1mm,3um)
Chromatography Type:Reversed phase
  
Chromatography ID:CH000384
Chromatography Summary:NADH assay
Methods Filename:SB_NADH_Assay_Agilent.pdf
Instrument Name:Agilent 1290 Infinity
Column Name:Waters Acquity HSS T3 (100 x 2.1mm,1.8um)
Column Temperature:30
Flow Rate:0.54 mL/min
Solvent A:100% water; 5 mM ammonium acetate, pH 6
Solvent B:100% acetonitrile
Chromatography Type:Reversed phase
  
Chromatography ID:CH000385
Chromatography Summary:Organic acid assay
Methods Filename:SB_OA_Assay.pdf
Instrument Name:Thermo Dionex Ultimate 3000
Column Name:Waters Acquity BEH C18 (100 x 2mm,1.7um)
Column Temperature:45
Flow Rate:0.3 mL/min
Solvent A:100% water; 0.1% formic acid
Solvent B:100% acetonitrile; 0.1% formic acid
Chromatography Type:Reversed phase

MS:

MS ID:MS000480
Analysis ID:AN000544
Instrument Name:Agilent 6490 QQQ
Instrument Type:Triple quadrupole
MS Type:ESI
MS Comments:Amino acid assay- ESI
Ion Mode:POSITIVE
  
MS ID:MS000481
Analysis ID:AN000545
Instrument Name:Agilent 6490 QQQ
Instrument Type:Triple quadrupole
MS Type:ESI
MS Comments:CoA assay-ESI
Ion Mode:POSITIVE
  
MS ID:MS000482
Analysis ID:AN000546
Instrument Name:Agilent 6490 QQQ
Instrument Type:Triple quadrupole
MS Type:ESI
MS Comments:NAD-ATP assay-ESI
Ion Mode:POSITIVE
  
MS ID:MS000483
Analysis ID:AN000547
Instrument Name:Agilent 6490 QQQ
Instrument Type:Triple quadrupole
MS Type:ESI
MS Comments:NADH assay-ESI
Ion Mode:POSITIVE
  
MS ID:MS000484
Analysis ID:AN000548
Instrument Name:Thermo Quantiva QQQ
Instrument Type:Triple quadrupole
MS Type:ESI
MS Comments:Organic acid assay-ESI
Ion Mode:POSITIVE
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