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.
| Study ID | ST000424 |
| Study Title | Metabolomics Approach to Allograft Assessment in Liver Transplantation (part II) |
| Study Type | Retrospective analysis of biobanked liver tissue from organ donors |
| Study Summary | This 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 |
| Department | SECIM |
| Last Name | Seal |
| First Name | John |
| Address | 1514 Jefferson Highway, New Orleans, LA 70121 |
| John.Seal@ochsner.org | |
| Phone | 504-232-4253 |
| Submit Date | 2016-05-06 |
| Num Groups | 3 |
| Total Subjects | 24 |
| Raw Data Available | Yes |
| Raw Data File Type(s) | mzXML |
| Analysis Type Detail | LC-MS |
| Release Date | 2017-10-03 |
| Release Version | 1 |
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: | Mammals |
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 |
|---|---|---|---|---|
| SA021549 | 118601 | Anoxia | F | NO |
| SA021550 | 115347 | Anoxia | F | NO |
| SA021551 | 114291 | Anoxia | F | NO |
| SA021552 | 116736 | Anoxia | F | NO |
| SA021553 | 115165 | Anoxia | F | NO |
| SA021554 | 121089 | Anoxia | M | NO |
| SA021555 | 121079 | Anoxia | M | NO |
| SA021556 | 120237 | Anoxia | M | NO |
| SA021557 | 120257 | Anoxia | M | YES |
| SA021561 | 121063 | Cerebrovascular/Stroke | F | NO |
| SA021562 | 114647 | Cerebrovascular/Stroke | F | NO |
| SA021563 | 115333 | Cerebrovascular/Stroke | M | NO |
| SA021558 | 121358 | CVA | F | NO |
| SA021559 | 121364 | CVA | M | NO |
| SA021560 | 121356 | CVA | M | NO |
| SA021564 | 121091 | Trauma | F | NO |
| SA021565 | 121095 | Trauma | F | NO |
| SA021566 | 120240 | Trauma | M | NO |
| SA021567 | 116707 | Trauma | M | NO |
| SA021568 | 114300 | Trauma | M | NO |
| SA021569 | 115342 | Trauma | M | NO |
| SA021570 | 117751 | Trauma | M | NO |
| SA021571 | 117323 | Trauma | M | NO |
| SA021572 | 121087 | Trauma | M | NO |
| SA021573 | 116709 | Trauma | 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 |
