Biomat 2008 : International Symposium on Mathematical and Computational Biology, Campos do JordaМѓo, Brazil, 22-27 November 2008 PDF
Preview Biomat 2008 : International Symposium on Mathematical and Computational Biology, Campos do JordaМѓo, Brazil, 22-27 November 2008
BIOMAT 2008 International Symposium on Mathematical and Computational Biology TThhiiss ppaaggee iinntteennttiioonnaallllyy lleefftt bbllaannkk BIOMAT 2008 International Symposium on Mathematical and Computational Biology Campos do Jordão, Brazil 22 – 27 November 2008 edited by Rubem P Mondaini Universidade Federal do Rio de Janeiro, Brazil World Scientific NEW JERSEY • LONDON • SINGAPORE • BEIJING • SHANGHAI • HONG KONG • TAIPEI • CHENNAI Published by World Scientific Publishing Co. Pte. Ltd. 5 Toh Tuck Link, Singapore 596224 USA office: 27 Warren Street, Suite 401-402, Hackensack, NJ 07601 UK office: 57 Shelton Street, Covent Garden, London WC2H 9HE British Library Cataloguing-in-Publication Data A catalogue record for this book is available from the British Library. BIOMAT 2008 International Symposium on Mathematical and Computational Biology Copyright © 2009 by World Scientific Publishing Co. Pte. Ltd. All rights reserved. This book, or parts thereof, may not be reproduced in any form or by any means, electronic or mechanical, including photocopying, recording or any information storage and retrieval system now known or to be invented, without written permission from the Publisher. For photocopying of material in this volume, please pay a copying fee through the Copyright Clearance Center, Inc., 222 Rosewood Drive, Danvers, MA 01923, USA. In this case permission to photocopy is not required from the publisher. ISBN-13 978-981-4271-81-3 ISBN-10 981-4271-81-0 Printed in Singapore. ZhangJi - BIOMAT2008.pmd 1 5/27/2009, 12:06 PM April24,2009 12:44 WSPC-ProceedingsTrimSize:9inx6in Preface.novo2 v PREFACE ThepresentpublicationisthevolumeofselectedworksoftheBIOMAT International Symposium on Mathematical and Computational Biology whichwasheldinCamposdoJord˜ao,abeautifultouristictownontheMan- tiqueira mountains, state of S˜ao Paulo, Brazil. Thirteen Keynote Speakers coming from Europe and Americas have given comprehensive talks in ple- nary sessions or have been lecturing in the two days of tutorials before the conference. Thirty two contributed papers were presented at technical ses- sionsaspartoftheevaluation processoftheBoardofReferees.Withmore than130submittedpapers,thelevelofacceptanceiswithinthereasonable level of 20% to follow the decision of the BIOMAT Consortium for this BIOMAT series of books and special issues of indexed journals. The informal atmosphere of the meeting has provided excellent oppor- tunities for discussing interesting scientific subjects among professionals of many educational formations. This is the spirit of interdisciplinary science of the BIOMAT Consortium as well as the duty of the Consortium of en- hancing the participation of young research students. The leaders of the tutorialsessionshavebeenalsoselectedamongtheKeynoteSpeakerscare- fully, in order to motivate the future work of prospective scientists. As is usually made for the volumes of this series, the set of selected pa- persisacombinationoforiginalandstateofartresearchaswellascompre- hensivereviewapproachesintheareasofMathematical Biology, Biological Physics, Mathematical Modelling of Biosystems and Bioinformatics. The book contains original results on Reaction-Diffusion waves, Demographic Allee Effect and the Dynamics of Reinfection of Tuberculosis. Recent re- views on the Modelling of Biosystems as the works on Symmetry Class of IcosahedralViralCapsidsandNewPerspectivesforaTheoreticalBasisfor Bioinformatics. WeacknowledgetheAdministrativeStaffofBrazilianSponsoringAgen- cies:CAPES-CoordinationfortheImprovementofHigherEducationPer- sonnel and CNPq - National Research Council. We thank the PETRO- BRAS Oil Company and the PETROBRAS - CENPES Research Centre. Thanks are also due to the Directors and Representatives of these insti- tutions for their receptiveness to the BIOMAT Symposium series: Prof. Sandoval Carneiro Jr. and Prof. Emidio Cantidio de Oliveira Filho, from CAPES,Prof.MarcoAntonioZago,fromCNPq,Dr.CarlosTadeudaCosta FragaandDr.GinaVazquezSebastianfromCENPES-PETROBRAS.Last but not least, we thank Luiz Augusto Sousa de Oliveira for his collabora- tion with the editorial work, Cecilia Mondaini and Felipe Mondaini for the April24,2009 12:44 WSPC-ProceedingsTrimSize:9inx6in Preface.novo2 vi index of this volume. On behalf of the BIOMAT Consortium, a non-profit association of sci- entificresearchersfromuniversitiesandresearchinstitutesinfivecontinents which is responsible for the organization of this annual series of symposia since the year 2001, we congratulate all the authors and participants for their professional work during the BIOMAT 2008 Symposium. Rubem P. Mondaini President of the BIOMAT Consortium Rio de Janeiro, December 2008. April24,2009 12:44 WSPC-ProceedingsTrimSize:9inx6in Preface.novo2 vii EDITORIAL BOARD OF THE BIOMAT CONSORTIUM Rubem Mondaini (Chair) Federal University of Rio de Janeiro, Brazil Alain Goriely University of Arizona, USA Alan Perelson Los Alamos National Laboratory, New Mexico, USA Alexei Finkelstein Institute of Protein Research, Russian Federation Ana Georgina Flesia Universidad Nacional de Cordoba, Argentina Anna Tramontano University of Rome La Sapienza, Italy Avner Friedman Ohio State University, USA Carlos Castillo-Ch´avez Arizona State University, USA Charles Pearce Adelaide University, Australia Christian Gautier Universit´e Claude Bernard, Lyon, France Christodoulos Floudas Princeton University, USA Denise Kirschner University of Michigan, USA Eduardo Gonza´lez-Olivares Catholic University of Valpara´ıso, Chile Eduardo Massad Faculty of Medicine, University of S. Paulo, Brazil Frederick Cummings University of California, Riverside, USA Guy Perri`ere Universit´e Claude Bernard, Lyon, France Ingo Roeder University of Leipzig, Germany Jaime Mena-Lorca Catholic University of Valparaso, Chile Jo˜ao Frederico A. Meyer State University of Campinas, Brazil John Harte University of California, Berkeley, USA John Jungck Beloit College, Wisconsin, USA Jorge Velasco-Hern´andez Instituto Mexicano del Petro´leo, Mexico Jos´e Flores University of South Dakota, USA Jos´e Fernando Fontanari University of S˜ao Paulo, Brazil Kerson Huang Massachussets Institute of Technology, USA Lisa Sattenspiel University of Missouri-Columbia, USA Louis Gross University of Tennessee, USA Ludek Berec Academy of Sciences, Czech Republic Marat Rafikov University of Northwest, Rio Grande do Sul, Brazil Mariano Ricard Havana University, Cuba Nicholas Britton University of Bath, UK Panos Pardalos University of Florida, Gainesville, USA Peter Stadler University of Leipzig, Germany Philip Maini University of Oxford, UK Pierre Baldi University of California, Irvine, USA Raymond Mej´ıa National Institute of Health, USA Richard Kerner Universit´e Pierre et Marie Curie, Paris, France April24,2009 12:44 WSPC-ProceedingsTrimSize:9inx6in Preface.novo2 viii Rodney Bassanezi State University of Campinas, Brazil Rui Dila˜o Instituto Superior T´ecnico, Lisbon, Portugal Ruy Ribeiro Los Alamos National Laboratory, New Mexico, USA Timoteo Carletti Facult´es Universitaires Notre-Dame de la Paix, Belgium Vitaly Volpert Universit´e de Lyon 1, France William Taylor National Institute for Medical Research, UK Zhijun Wu Iowa State University, USA April24,2009 16:11 WSPC-ProceedingsTrimSize:9inx6in Table.Of.Contents.novo2 ix CONTENTS Preface................................................................v Editorial Board of the BIOMAT Consortium..........................vii Mathematical Analysis of Reaction-Diffusion Equations Reaction-Diffusion Waves: Classical Theory and Recent Developments. V. Volpert..............................................................1 Linear and Non-linear Front Selection for Reaction-Diffusion Equations. A. Goriely, J. Rose....................................................29 Epidemiological Modelling Epidemiological Models with Demographic Allee Effect. F. M. Hilker ..52 Pulse Infection, Control Fixing Time between Infection Events. F. Cordova-Lepe, E. Gonza´les-Olivares ................................78 Network Structure and Epidemic Waves in Metapopulation Models. V. Colliza, F. Gargiulo, A. Barrat, J. R. Ramasco, A. Vespignani .....91 Modelling of Biosystems Structure Integral Symmetry Classes of Icosahedral Viral Capsids. R. Kerner...114 Recognition of Freshwater Macroinvertebrate Taxa by Image Analysis and Artificial Neural Networks. S. R. Doyle, A. L. Somma, J. Codnia, J. E. Ure, L. Romanelli, F.R. Momo.......................................132 A Study of Hydrophobic Effect on the Protein Folding using Monte Carlo. L. P. B. Scott........................................................146 Population Dynamics Evolution in a Host-Parasite System. N. F. Britton...................157 A Population Dynamics Approach to Language Evolution. J. F. Fontanari ......................................................170 Impact and Effectiveness of Marine Protected Area on Economic Sustain- ability. C. Jerry, N. Rassi............................................182 Long Distance Dispersal and Allee Effect in a Biological Invasion. S. L. Vega, W. C. Ferreira ..........................................192 Modeling the Risk of Falciparum Malaria for Travelers to Holoendemic Regions. E. Massad, M. N. Burattini, F. A. B. Coutinho ............211 May20,2009 11:42 WSPC-ProceedingsTrimSize:9inx6in Table.Of.Contents.novo2 x Computational Biology and Bioinformatics Neural Network Classi(cid:12)cation with Prior Knowledge for Analysis of Bio- logical Data. P. M. Pardalos, D. Abbate, M. R. Guarracino A. Chinchuluun......................................................223 The MarkovChains (MarkovSet-Chains) as a Tool for Bacterial Genomes Evolution Analysis. P. Sliwka, M. Dudkiewicz ........................235 Multi-objectivesApproachAppliedtothePhylogeneticInferenceProblem. W. Cancino, A. C. B. Delbem........................................252 Logic Formulas Based Knowledge Discovery and its Applications to the Classi(cid:12)cation of Biological Data. P. M. Pardalos, G. Felici, P. Bertolazzi, M. R. Guarracino, A. Chinchuluun...................................265 Unsupervised Classi(cid:12)cation of Tree Structured Objects. A. G. Flesia .280 Genetic Codes as Codes: Towards a Theoretical Basis for Bioinformatics. J. R. Jungck.........................................................300 Modelling Physiological Disorders and Medical Physics Mathematical Biology: Some Opportunities in Integrative Biology. R. Mej(cid:19)ia .............................................................338 An In silico Approach for the Antigenic Mutation and Immune Memory. A. de Castro, A. R. Neto, D. Alves...................................351 Software Developed from a Fuzzy Mathematical Model to Predict the Pathological Stage of the Prostate Cancer. G. P. Silveira, L. L. Vendite, L. C. Barros .........................................................365 Modeling and Simulation of the Human Eye. L. P. Brazil, L. H. O. Fer- nandes, L. G. Nonato, L. A. V. Carvalho, O. M. Bruno..............377 Index................................................................393
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