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Authors: Jana Šilhavá and Pavel Smrž

Affiliation: Brno University of Technology, Czech Republic

Keyword(s): Boosting, Clinical data, Combined models, Generalized linear models, Logistic regression, Microarray data, Model evaluation.

Related Ontology Subjects/Areas/Topics: Bioinformatics ; Biomedical Engineering ; Biostatistics and Stochastic Models ; Data Mining and Machine Learning ; Genomics and Proteomics

Abstract: Combining relevant information from high-dimensional microarray data and low-dimensional clinical variables to predict disease outcome is important to improve treatment decisions. Such a combination may yield more accurate predictions than those obtained based on the use of microarray or clinical data alone. We propose a combination of logistic regression for clinical data and BinomialBoosting for microarray data. Then we propose its extension designed for redundant sets of data. Our approach combines microarray and clinical data at the level of decision integration. The extension includes pre-validation of models built with microarray and clinical data followed by weights calculation. Weights determine relevance of microarray and clinical models for data combination. Evaluations are performed with several redundant and non-redundant simulated datasets. Then some tests are applied to two real benchmark datasets. Our approach increases outcome prediction on non-redundant simulated dat asets and does not decrease outcome prediction on redundant simulated datasets. Pre-validation of built models improves outcome of the prediction up to 4% in the case of real redundant dataset. (More)

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Paper citation in several formats:
Šilhavá, J. and Smrž, P. (2010). IMPROVED DISEASE OUTCOME PREDICTION BASED ON MICROARRAY AND CLINICAL DATA COMBINATION AND PRE-VALIDATION. In Proceedings of the First International Conference on Bioinformatics (BIOSTEC 2010) - BIOINFORMATICS; ISBN 978-989-674-019-1; ISSN 2184-4305, SciTePress, pages 108-113. DOI: 10.5220/0002697601080113

@conference{bioinformatics10,
author={Jana Šilhavá. and Pavel Smrž.},
title={IMPROVED DISEASE OUTCOME PREDICTION BASED ON MICROARRAY AND CLINICAL DATA COMBINATION AND PRE-VALIDATION},
booktitle={Proceedings of the First International Conference on Bioinformatics (BIOSTEC 2010) - BIOINFORMATICS},
year={2010},
pages={108-113},
publisher={SciTePress},
organization={INSTICC},
doi={10.5220/0002697601080113},
isbn={978-989-674-019-1},
issn={2184-4305},
}

TY - CONF

JO - Proceedings of the First International Conference on Bioinformatics (BIOSTEC 2010) - BIOINFORMATICS
TI - IMPROVED DISEASE OUTCOME PREDICTION BASED ON MICROARRAY AND CLINICAL DATA COMBINATION AND PRE-VALIDATION
SN - 978-989-674-019-1
IS - 2184-4305
AU - Šilhavá, J.
AU - Smrž, P.
PY - 2010
SP - 108
EP - 113
DO - 10.5220/0002697601080113
PB - SciTePress

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