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Hugh Cartwright (editor) - Artificial Neural Networks (Methods in Molecular Biology, 2190)

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Hugh Cartwright (editor) Artificial Neural Networks (Methods in Molecular Biology, 2190)

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This volume presents examples of how Artificial Neural Networks (ANNs) are applied in biological sciences and related areas. Chapters cover a wide variety of topics, including the analysis of intracellular sorting information, prediction of the behavior of bacterial communities, biometric authentication, studies of Tuberculosis, gene signatures in breast cancer classification, the use of mass spectrometry in metabolite identification, visual navigation, and computer diagnosis. Written in the highly successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, application details for both the expert and non-expert reader, and tips on troubleshooting and avoiding known pitfalls.

Authoritative and practical, Artificial Neural Networks: Third Edition should be of value to all scientists interested in the hands-on application of ANNs in the biosciences.

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Volume 2190 Methods in Molecular Biology Series Editor John M Walker School - photo 1
Volume 2190
Methods in Molecular Biology
Series Editor
John M. Walker
School of Life and Medical Sciences, University of Hertfordshire, Hatfield, Hertfordshire, UK

For further volumes: http://www.springer.com/series/7651 For over 35 years, biological scientists have come to rely on the research protocols and methodologies in the critically acclaimed Methods in Molecular Biology series. The series was the first to introduce the step-by-step protocols approach that has become the standard in all biomedical protocol publishing. Each protocol is provided in readily-reproducible step-by step fashion, opening with an introductory overview, a list of the materials and reagents needed to complete the experiment, and followed by a detailed procedure that is supported with a helpful notes section offering tips and tricks of the trade as well as troubleshooting advice. These hallmark features were introduced by series editor Dr. John Walker and constitute the key ingredient in each and every volume of the Methods in Molecular Biology series. Tested and trusted, comprehensive and reliable, all protocols from the series are indexed in PubMed.

For over 35 years, biological scientists have come to rely on the research protocols and methodologies in the critically acclaimed Methods in Molecular Biology series. The series was the first to introduce the step-by-step protocols approach that has become the standard in all biomedical protocol publishing. Each protocol is provided in readily-reproducible step-by-step fashion, opening with an introductory overview, a list of the materials and reagents needed to complete the experiment, and followed by a detailed procedure that is supported with a helpful notes section offering tips and tricks of the trade as well as troubleshooting advice. These hallmark features were introduced by series editor Dr. John Walker and constitute the key ingredient in each and every volume of the Methods in Molecular Biology series. Tested and trusted, comprehensive and reliable, all protocols from the series are indexed in PubMed.

Editor
Hugh Cartwright
Artificial Neural Networks
3rd ed. 2021
Editor Hugh Cartwright Chemistry Oxford University Oxford UK ISSN - photo 2
Editor
Hugh Cartwright
Chemistry, Oxford University, Oxford, UK
ISSN 1064-3745 e-ISSN 1940-6029
Methods in Molecular Biology
ISBN 978-1-0716-0825-8 e-ISBN 978-1-0716-0826-5
https://doi.org/10.1007/978-1-0716-0826-5
Springer Science+Business Media, LLC, part of Springer Nature 2021
This work is subject to copyright. All rights are reserved by the Publisher, whether the whole or part of the material is concerned, specifically the rights of translation, reprinting, reuse of illustrations, recitation, broadcasting, reproduction on microfilms or in any other physical way, and transmission or information storage and retrieval, electronic adaptation, computer software, or by similar or dissimilar methodology now known or hereafter developed.
The use of general descriptive names, registered names, trademarks, service marks, etc. in this publication does not imply, even in the absence of a specific statement, that such names are exempt from the relevant protective laws and regulations and therefore free for general use.
The publisher, the authors and the editors are safe to assume that the advice and information in this book are believed to be true and accurate at the date of publication. Neither the publisher nor the authors or the editors give a warranty, express or implied, with respect to the material contained herein or for any errors or omissions that may have been made. The publisher remains neutral with regard to jurisdictional claims in published maps and institutional affiliations.

This Humana imprint is published by the registered company Springer Science+Business Media, LLC, part of Springer Nature.

The registered company address is: 1 New York Plaza, New York, NY 10004, U.S.A.

Preface

Two decades ago it would have been hard to foresee the remarkable growth in the use of artificial intelligence (AI) in the physical and life sciences. But there is a simple explanation for that rise: AI tools work.

Software is now readily available for Artificial Neural Networks, Genetic Algorithms, Deep Learning, Random Forests, Support Vector Machines, and other methods. While the software is not always trivial to use, it is becoming both more user-friendly and more powerful; this is encouraging scientists, whatever their specialization, to dive in.

This book showcases some of the studies now being pursued in the life sciences: topics range from the identification of genotype-phenotype correlations to the use of machine learning to evaluate biomedical time series; from de novo drug design to using recursive neural networks in the scoring of protein models; from studies of gene regulation in bacteria to the application of machine learning to the assessment of tumor tissue, and many more.

Traditional methods of analysis are in no imminent danger of being pushed out of the door by AI. On the contrary, these well-tested methods are increasingly being combined with the newer computational tools to enhance understanding of the large and complex datasets that the life sciences can generate.

As in earlier editions, readers who are intrigued by the applications discussed in these chapters will find practical details to help them apply the methods of AI in their own work.

Hugh Cartwright
Oxford, UK
Contents
Edward Airey , Stephanie Portelli , Joicymara S. Xavier , Yoo Chan Myung , Michael Silk , Malancha Karmakar , Joo P. L. Velloso , Carlos H. M. Rodrigues , Hardik H. Parate , Anjali Garg , Raghad Al-Jarf , Lucy Barr , Juliana A. Geraldo , Pmela M. Rezende , Douglas E. V. Pires and David B. Ascher
Christian Bock , Michael Moor , Catherine R. Jutzeler and Karsten Borgwardt
Davide Chicco
Kratika Naskulwar , Ruben Chevez-Guardado and Lourdes Pea-Castillo
Silvia Curteanu , Elena-Niculina Dragoi , Alexandra Cristina Blaga , Anca Irina Galaction and Dan Cascaval
Xuhan Liu , Adriaan P. IJzerman and Gerard J. P. van Westen
Irene Lena Hudson
T. Murlidharan Nair
Ali Al-Yousef and Sandhya Samarasinghe
Xiao Tan , Andrew T. Su , Hamideh Hajiabadi , Minh Tran and Quan Nguyen
Hao Wang , Jiaxin Yang and Jianrong Wang
Derek Reiman , Ali M. Farhat and Yang Dai
Antnio J. Preto , Pedro Matos-Filipe , Jos G. de Almeida , Joana Mouro and Irina S. Moreira
Diana Sousa , Andre Lamurias and Francisco M. Couto
Eshel Faraggi , Robert L. Jernigan and Andrzej Kloczkowski
Charles Fracchia
Mario Malcangi
Contributors
Edward Airey
Structural Biology and Bioinformatics, Department of Biochemistry and Molecular Biology, Bio21 Institute, University of Melbourne, Melbourne, VIC, Australia
ACRF Facility for Innovative Cancer Drug Discovery, Bio21 Institute, University of Melbourne, Melbourne, VIC, Australia
Computational Biology and Clinical Informatics, Baker Heart and Diabetes Institute, Melbourne, VIC, Australia
Raghad Al-Jarf
Structural Biology and Bioinformatics, Department of Biochemistry and Molecular Biology, Bio21 Institute, University of Melbourne, Melbourne, VIC, Australia
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