Corporate Banner
Satellite Banner
Metabolomics & Lipidomics
Scientific Community
 
Become a Member | Sign in
Home>News>This Article
  News
Return

Translational Biomarker Discovery in Clinical Metabolomics: An Introductory Tutorial

Published: Monday, April 08, 2013
Last Updated: Monday, April 08, 2013
Bookmark and Share
This tutorial provides advice, commentary and explanations regarding the selection and analysis of both single and multiple biomarkers for disease diagnosis and/or prediction.

Abstract
Metabolomics is increasingly being applied towards the identification of biomarkers for disease diagnosis, prognosis and risk prediction. Unfortunately among the many published metabolomic studies focusing on biomarker discovery, there is very little consistency and relatively little rigor in how researchers select, assess or report their candidate biomarkers. In particular, few studies report any measure of sensitivity, specificity, or provide receiver operator characteristic (ROC) curves with associated confidence intervals. Even fewer studies explicitly describe or release the biomarker model used to generate their ROC curves. This is surprising given that for biomarker studies in most other biomedical fields, ROC curve analysis is generally considered the standard method for performance assessment. Because the ultimate goal of biomarker discovery is the translation of those biomarkers to clinical practice, it is clear that the metabolomics community needs to start "speaking the same language" in terms of biomarker analysis and reporting-especially if it wants to see metabolite markers being routinely used in the clinic. In this tutorial, we will first introduce the concept of ROC curves and describe their use in single biomarker analysis for clinical chemistry. This includes the construction of ROC curves, understanding the meaning of area under ROC curves (AUC) and partial AUC, as well as the calculation of confidence intervals. The second part of the tutorial focuses on biomarker analyses within the context of metabolomics. This section describes different statistical and machine learning strategies that can be used to create multi-metabolite biomarker models and explains how these models can be assessed using ROC curves. In the third part of the tutorial we discuss common issues and potential pitfalls associated with different analysis methods and provide readers with a list of nine recommendations for biomarker analysis and reporting. To help readers test, visualize and explore the concepts presented in this tutorial, we also introduce a web-based tool called ROCCET (ROC Curve Explorer & Tester, http://www.roccet.ca). ROCCET was originally developed as a teaching aid but it can also serve as a training and testing resource to assist metabolomics researchers build biomarker models and conduct a range of common ROC curve analyses for biomarker studies.

The article is published online in the journal Metabolomics and is free to access.


Further Information
Access to this exclusive content is for Technology Networks Premium members only.

Join Technology Networks Premium for free access to:

  • Exclusive articles
  • Presentations from international conferences
  • Over 2,400+ scientific posters on ePosters
  • More than 3,700+ scientific videos on LabTube
  • 35 community eNewsletters


Sign In



Forgotten your details? Click Here
If you are not a member you can join here

*Please note: By logging into TechnologyNetworks.com you agree to accept the use of cookies. To find out more about the cookies we use and how to delete them, see our privacy policy.

Related Content

Metabolomics Data Normalization with EigenMS
In this study, a singular value decomposition-based method, called EigenMS, for normalization of metabolomics data was tested.
Wednesday, January 07, 2015
Circadian Variation Of The Human Metabolome
Real-time breath analysis was used to study circadian metabolism.
Wednesday, January 07, 2015
Bridging Quantitative Analysis and Untargeted Metabolomics
Untargeted metabolomics has become a popular tool in metabolite biomarker discovery and in the evaluation of metabolic pathway changes associated with disease.
Thursday, December 04, 2014
Comparison of Caffeinated and Decaffeinated Coffee - Implications for Alzheimer's Disease
Researchers from the National University of Singapore successfully demonstrated the viability of GC-TOF-MS as an analytical platform for metabolomics analysis of coffee samples.
Monday, September 08, 2014
Mass Spec-Based Metabolomics Workflows to Evaluate Plant Immunity
This article reviews metabolomics studies used to evaluate plant immunity with an emphasis on mass spectrometry in its many forms.
Friday, July 25, 2014
Assessing Anticancer Drugs Efficacy by Amino Acid Metabolomics
Researchers aimed to develop a method that determines the therapeutic efficacy of anticancer drugs based on the changes in amino acid metabolism at the cellular level.
Thursday, July 17, 2014
Evaluating Acute Hydrogen Sulfide Poisoning in Rats through Serum Metabolomics
Through the use of GC/MS-based metabolomics, researchers have evaluated the effect of acute hydrogen sulfide poisoning on the metabolic profiles of rats.
Thursday, June 12, 2014
Diagnosis of Bladder Cancer and Prediction of Survival by Urinary Metabolomics
Bladder cancer seems to be ideal for urinary metabolomics-based diagnosis, as urine can directly contact the cancer lesion in the bladder.
Tuesday, April 22, 2014
A Metabolomic Perspective on Coeliac Disease
Metabolomics has proved to be a useful complement for the characterization of several physiological and pathological conditions and offers promises as a clinical tool.
Monday, April 07, 2014
The Role of Mass Spectrometry in the "Omics" Era
The tremendous developments of the MS technology and concurrent gene sequencing efforts have made the “-omic” revolution possible.
Tuesday, February 18, 2014
Metabolomics Reveals a Role for the Chromatin-Binding Protein HMGN5 in Glutathione Metabolism
This study links the expression of HMGN5 to transcriptional changes that affect glutathione metabolism in the liver.
Wednesday, January 15, 2014
Correlation between Serum Levels of Protein-Bound Uremic Toxins in Hemodialysis Patients Measured by LC/MS/MS
Mass spectrometry has been successfully applied for the identification and quantification of uremic toxins.
Wednesday, January 15, 2014
Lipidomic Mass Spectrometry and its Application in Neuroscience
This review presents an overview of MS techniques that enable the identification and relative quantitation of cellular lipidome with a brief discussion on their utility for neuroscience related research.
Thursday, January 09, 2014
Metabolomics as a Diagnostic Tool in Gastroenterology
This review summarizes contributions that metabolomics has made in IBD and IBS and presents potential future directions within the field.
Thursday, December 12, 2013
Comparative Analysis of Mass Spectral Similarity Measures on Peak Alignment for Comprehensive GCxGC-MS
In this study researchers from Wayne State University compare the effects of five mass spectral similarity measures on peak alignment.
Wednesday, October 30, 2013
Scientific News
Researchers Find Key Player in Diabetic Kidney Disease Through Power of Metabolomics
Discovery could lead to new and better diagnostic marker for chronic kidney disease.
Can Cell Cycle Protein Prevent or Kill Breast Cancer Tumors?
An MD Anderson study has shown the potential of a simple molecule involved in cancer metabolism as a powerful therapeutic.
Study Reveals Improved Way to Interpret High-Throughput Biological Data
A recent study has revealed a novel workflow, identifying associations between molecules to provide insights into cellular metabolism and gene expression in complex biological systems.
Optical 'Dog's Nose' Developed to Detect Cancer, Other Diseases
Researchers are using optical spectroscopy to develop a quick, non-invasive “breath test” they believe will have the potential to screen for a variety of diseases, including diabetes, infections and cancers.
Researchers Link Liver Disease and Drug Metabolism
Researchers have discovered that nonalcoholic steatohepatitis, an increasingly common but often undiagnosed liver disease, could have significant medical implications for people with type 2 diabetes.
Scientists Create Synthetic Membranes That Grow Like Living Cells
Chemists and biologists at UC San Diego have succeeded in designing and synthesizing an artificial cell membrane capable of sustaining continual growth, just like a living cell.
Potential New Class of Cancer Drugs
Scientists have found a way to stop cancer cell growth by targeting the Warburg Effect, a trait of cancer cell metabolism that scientists have been eager to exploit.
Team Led by TSRI Scientists Shows AIDS Vaccine Candidate Successfully ‘Primes’ Immune System
New research shows that an experimental vaccine candidate can stimulate immune activity necessary to prevent HIV infection.
The Perfect Partnership: Research & Industry; Software & Instrumentation. It really starts to come together at ASMS 2015
Collaboration and knowledge-sharing were evident everywhere: on the bus, in the hallways and in the bars. This article aims to capture this theme and share with you some of the fruits of this coming together of science and industry.
Metabolite of Cancer Drug More Effective at Treating Aggressive Tumors
Researchers have discovered for the first time that a metabolite of an FDA-approved drug for metastatic prostate cancer, has more anti-cancer properties than its precursor.
Skyscraper Banner

Skyscraper Banner
Go to LabTube
Go to eposters
 
Access to the latest scientific news
Exclusive articles
Upload and share your posters on ePosters
Latest presentations and webinars
View a library of 1,800+ scientific and medical posters
2,400+ scientific and medical posters
A library of 2,500+ scientific videos on LabTube
3,700+ scientific videos
Close
Premium CrownJOIN TECHNOLOGY NETWORKS PREMIUM FREE!