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TMA Navigator

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An open access web application for analysis of TMA data and related information, accommodating categorical, semi-continuous and continuous expression scores. Non-biological variation, or batch effects, can hinder data analysis and may be mitigated using the ComBat algorithm, which is incorporated with enhancements for automated application to TMA data. Unsupervised grouping of samples (patients) is provided according to Gaussian mixture modelling of marker scores, with cardinality selected by Bayesian information criterion regularization. Kaplan-Meier survival analysis is available, including comparison of groups identified by mixture modelling using the Mantel-Cox log-rank test. TMA Navigator also supports network inference approaches useful for TMA datasets, which often constitute comparatively few markers. Private anonymous access is available, and user accounts may be generated for easier data management. An extensive user guide and demonstration datasets are available.

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TMA Navigator classification

TMA Navigator specifications

Interface:
Web user interface
Output data:
Output is interactive, and results may be exported for use with external programs.
Stability:
Stable
Restrictions to use:
None
Computer skills:
Basic
Maintained:
Yes

TMA Navigator support

Maintainer

  • Ian M. Overton <>

Credits

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Publications

Institution(s)

MRC Human Genetics Unit, MRC Institute of Genetics and Molecular Medicine, University of Edinburgh, Western General Hospital, Edinburgh, UK

Funding source(s)

Scottish Funding Council (SFC) and the Chief Scientist's Office (CSO); Royal Society of Edinburgh Scottish Government Fellowship co-funded by Marie Curie Actions and the UK Medical Research Council (MRC)

Link to literature

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