Identification of prognostic signatures in breast cancer microarray data using bayesian techniques

Carrivick, L., Rogers, S. , Clark, J., Campbell, C., Girolami, M. and Cooper, C. (2006) Identification of prognostic signatures in breast cancer microarray data using bayesian techniques. Journal of the Royal Society: Interface, 3(8), pp. 367-381. (doi:10.1098/rsif.2005.0093)

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Publisher's URL: http://dx.doi.org/10.1098/rsif.2005.0093

Abstract

We apply a new Bayesian data analysis technique (Latent Process Decomposition) to four recent microarray datasets for breast cancer. Compared to hierarchical cluster analysis, for example, this technique has advantages such as objective assessment of the optimal number of sample or gene clusters in the data, penalisation of overcomplex models fitting to noise in the data and a common latent space of explanatory variables for samples and genes. Our analysis provides a clearer insight into these datasets, enabling assignment of patients to one of four principal processes, each with a distinct clinical outcome. One process is indolent and associated with under-expression across a number of genes associated with tumour growth. One process is associated with over-expression of GRB7 and ERBB2. The most aggressive process is associated with abnormal expression of transcription factor genes, including members of the FOX family of transcription factor genes

Item Type:Articles
Status:Published
Refereed:Yes
Glasgow Author(s) Enlighten ID:Rogers, Dr Simon and Cooper, Mr Colin and Girolami, Prof Mark
Authors: Carrivick, L., Rogers, S., Clark, J., Campbell, C., Girolami, M., and Cooper, C.
Subjects:Q Science > QA Mathematics > QA75 Electronic computers. Computer science
Q Science > QH Natural history > QH426 Genetics
Q Science > Q Science (General)
College/School:College of Science and Engineering > School of Computing Science
University Services > IT Services > Computing Service
Journal Name:Journal of the Royal Society: Interface
Publisher:The Royal Society
ISSN:1742-5689
ISSN (Online):1742-5662
Copyright Holders:Copyright © 2006 Royal Society
First Published:First published in Journal of the Royal Society Interface 18(3):367-381
Publisher Policy:Reproduced in accordance with the copyright policy of the publisher

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Project CodeAward NoProject NamePrincipal InvestigatorFunder's NameFunder RefLead Dept
409961The Glasgow computing science research festival 2005Muffy CalderEngineering & Physical Sciences Research Council (EPSRC)EP/D030110/1Computing Science