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Authors: András Hartmann 1 ; Susana Vinga 2 and Joao M. Lemos 1

Affiliations: 1 INESC-ID and IST-UTL, Portugal ; 2 INESC-ID and FCM-UNL, Portugal

ISBN: 978-989-8425-90-4

Keyword(s): HIV-1 viral dynamics, Parameter identification, Non-linear, Differential equation, Time-varying parameter.

Related Ontology Subjects/Areas/Topics: Algorithms and Software Tools ; Bioinformatics ; Biomedical Engineering ; Biostatistics and Stochastic Models ; Immuno- and Chemo-Informatics ; Pharmaceutical Applications ; Systems Biology

Abstract: The importance of a system theory based approach in understanding immunological diseases, in particular the HIV-1 infection, is being increasingly recognized. This is because the dynamics of virus infection may be effectively represented by relatively compact state space models in the form of nonlinear ordinary differential equations. This work focuses on the identification of constant and time-varying parameters in long-term dynamic HIV-1 data.We introduce a novel strategy for parameter identification. Constant parameters were estimated using Particle Swarm Optimization (PSO), and time-varying parameters were captured with Extended Kalman Filter (EKF). As EKF relies on the noise strongly, the measurement noise was also inferred. The results are convincing on clinical data: similar noise parameters were detected for two different subjects, a good overall fit was reached to the data, and EKF was found efficient in estimating the time-varying parameters, overcoming drawbacks and limitat ions of existing methods. (More)

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Paper citation in several formats:
Hartmann, A.; Vinga, S. and M. Lemos, J. (2012). IDENTIFICATION OF HIV-1 DYNAMICS - Estimating the Noise Model, Constant and Time-varying Parameters of Long-term Clinical Data.In Proceedings of the International Conference on Bioinformatics Models, Methods and Algorithms - Volume 1: BIOINFORMATICS, (BIOSTEC 2012) ISBN 978-989-8425-90-4, pages 286-289. DOI: 10.5220/0003758902860289

@conference{bioinformatics12,
author={András Hartmann. and Susana Vinga. and Joao M. Lemos.},
title={IDENTIFICATION OF HIV-1 DYNAMICS - Estimating the Noise Model, Constant and Time-varying Parameters of Long-term Clinical Data},
booktitle={Proceedings of the International Conference on Bioinformatics Models, Methods and Algorithms - Volume 1: BIOINFORMATICS, (BIOSTEC 2012)},
year={2012},
pages={286-289},
publisher={SciTePress},
organization={INSTICC},
doi={10.5220/0003758902860289},
isbn={978-989-8425-90-4},
}

TY - CONF

JO - Proceedings of the International Conference on Bioinformatics Models, Methods and Algorithms - Volume 1: BIOINFORMATICS, (BIOSTEC 2012)
TI - IDENTIFICATION OF HIV-1 DYNAMICS - Estimating the Noise Model, Constant and Time-varying Parameters of Long-term Clinical Data
SN - 978-989-8425-90-4
AU - Hartmann, A.
AU - Vinga, S.
AU - M. Lemos, J.
PY - 2012
SP - 286
EP - 289
DO - 10.5220/0003758902860289

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