OmicsVis

an interactive tool for visually analyzing metabolomics data.

Philip Livengood, Ross Maciejewski, Wei Chen, David S. Ebert

Research output: Contribution to journalArticle

5 Citations (Scopus)

Abstract

When analyzing metabolomics data, cancer care researchers are searching for differences between known healthy samples and unhealthy samples. By analyzing and understanding these differences, researchers hope to identify cancer biomarkers. Due to the size and complexity of the data produced, however, analysis can still be very slow and time consuming. This is further complicated by the fact that datasets obtained will exhibit incidental differences in intensity and retention time, not related to actual chemical differences in the samples being evaluated. Additionally, automated tools to correct these errors do not always produce reliable results. This work presents a new analytics system that enables interactive comparative visualization and analytics of metabolomics data obtained by two-dimensional gas chromatography-mass spectrometry (GC × GC-MS). The key features of this system are the ability to produce visualizations of multiple GC × GC-MS data sets, and to explore those data sets interactively, allowing a user to discover differences and features in real time. The system provides statistical support in the form of difference, standard deviation, and kernel density estimation calculations to aid users in identifying meaningful differences between samples. These are combined with novel transfer functions and multiform, linked visualizations in order to provide researchers with a powerful new tool for GC × GC-MS exploration and bio-marker discovery.

Original languageEnglish (US)
JournalBMC Bioinformatics
Volume13 Suppl 8
StatePublished - 2012

Fingerprint

Metabolomics
Visualization
Research Personnel
Spatial Analysis
Tumor Biomarkers
Gas chromatography
Biomarkers
Gas Chromatography-Mass Spectrometry
Mass spectrometry
Transfer functions
Cancer
Gas Chromatography
Kernel Density Estimation
Mass Spectrometry
Datasets
Neoplasms
Standard deviation
Transfer Function

ASJC Scopus subject areas

  • Biochemistry
  • Molecular Biology
  • Computer Science Applications
  • Applied Mathematics
  • Structural Biology

Cite this

OmicsVis : an interactive tool for visually analyzing metabolomics data. / Livengood, Philip; Maciejewski, Ross; Chen, Wei; Ebert, David S.

In: BMC Bioinformatics, Vol. 13 Suppl 8, 2012.

Research output: Contribution to journalArticle

Livengood, Philip ; Maciejewski, Ross ; Chen, Wei ; Ebert, David S. / OmicsVis : an interactive tool for visually analyzing metabolomics data. In: BMC Bioinformatics. 2012 ; Vol. 13 Suppl 8.
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