Download Full eBooks in PDF
Mathematics Of Evolution And Phylogeny Book in PDF, ePub and Kindle version is available to download in english. Read online anytime anywhere directly from your device. Click on the download button below to get a free pdf file of Mathematics Of Evolution And Phylogeny book. This book definitely worth reading, it is an incredibly well-written.
Author : Olivier Gascuel
Publisher : Oxford University Press on Demand
Page : 443 pages
File Size : 50,9 Mb
Release : 2005-02-24
Category : Mathematics
ISBN : 9780198566106
Table of contents
Author : Mike Steel
Publisher : SIAM
Page : 302 pages
File Size : 43,6 Mb
Release : 2016-09-29
Category : Science
ISBN : 9781611974478
Phylogenetics is a topical and growing area of research. Phylogenies (phylogenetic trees and networks) allow biologists to study and graph evolutionary relationships between different species. These are also used to investigate other evolutionary processes?for example, how languages developed or how different strains of a virus (such as HIV or influenza) are related to each other. This self-contained book addresses the underlying mathematical theory behind the reconstruction and analysis of phylogenies. The theory is grounded in classical concepts from discrete mathematics and probability theory as well as techniques from other branches of mathematics (algebra, topology, differential equations). The biological relevance of the results is highlighted throughout. The author supplies proofs of key classical theorems and includes results not covered in existing books, emphasizes relevant mathematical results derived over the past 20 years, and provides numerous exercises, examples, and figures.
Author : Olivier Gascuel,Mike Steel
Publisher : OUP Oxford
Page : 352 pages
File Size : 49,6 Mb
Release : 2007-06-28
Category : Mathematics
ISBN : 9780191525988
Evolution is a complex process, acting at multiple scales, from DNA sequences and proteins to populations of species. Understanding and reconstructing evolution is of major importance in numerous subfields of biology. For example, phylogenetics and sequence evolution is central to comparative genomics, attempts to decipher genomes, and molecular epidemiology. Phylogenetics is also the focal point of large-scale international biodiversity assessment initiatives such as the 'Tree of Life' project, which aims to build the evolutionary tree for all extant species. Since the pioneering work in phylogenetics in the 1960s, models have become increasingly sophisticated to account for the inherent complexity of evolution. They rely heavily on mathematics and aim at modelling and analyzing biological phenomena such as horizontal gene transfer, heterogeneity of mutation, and speciation and extinction processes. This book presents these recent models, their biological relevance, their mathematical basis, their properties, and the algorithms to infer them from data. A number of subfields from mathematics and computer science are involved: combinatorics, graph theory, stringology, probabilistic and Markov models, information theory, statistical inference, Monte Carlo methods, continuous and discrete algorithmics. This book arises from the Mathematics of Evolution & Phylogenetics meeting at the Mathematical Institute Henri Poincaré, Paris, in June 2005 and is based on the outstanding state-of-the-art reports presented by the conference speakers. Ten chapters - based around five themes - provide a detailed overview of key topics, from the underlying concepts to the latest results, some of which are at the forefront of current research.
Author : Avner Friedman
Publisher : Springer
Page : 210 pages
File Size : 46,5 Mb
Release : 2008-04-26
Category : Mathematics
ISBN : 9783540743316
This book offers an introduction to fast growing research areas in evolution of species, population genetics, ecological models, and population dynamics. It reviews the concept and methodologies of phylogenetic trees, introduces ecological models, examines a broad range of ongoing research in population dynamics, and deals with gene frequencies under the action of migration and selection. The book features computational schemes, illustrations, and mathematical theorems.
Author : Charles Semple,Mike Steel,Both in the Department of Mathematics and Statistics Mike Steel
Publisher : Oxford University Press on Demand
Page : 258 pages
File Size : 51,9 Mb
Release : 2003
Category : Computers
ISBN : 0198509421
'Phylogenetics' is the reconstruction and analysis of phylogenetic (evolutionary) trees and networks based on inherited characteristics. It is a flourishing area of intereaction between mathematics, statistics, computer science and biology.The main role of phylogenetic techniques lies in evolutionary biology, where it is used to infer historical relationships between species. However, the methods are also relevant to a diverse range of fields including epidemiology, ecology, medicine, as well as linguistics and cognitive psychologyThis graduate-level book, based on the authors lectures at The University of Canterbury, New Zealand, focuses on the mathematical aspects of phylogenetics. It brings together the central results of the field (providing proofs of the main theorem), outlines their biological significance,and indicateshow algorithms may be derived. The presentation is self-contained and relies on discrete mathematics with some probability theory. A set of exercises and at least one specialist topic ends each chapter.This book is intended for biologists interested in the mathematical theory behind phylogenetic methods, and for mathematicians, statisticians, and computer scientists eager to learn about this emerging area of discrete mathematics.'Phylogenetics' in the 24th volume in the Oxford Lecture Series in Mathematics and its Applications. This series contains short books suitable for graduate students and researchers who want a well-written account of mathematics that is fundamental to current to research. The series emphasises futuredirections of research and focuses on genuine applications of mathematics to finance, engineering and the physical and biological sciences.
Author : Emmanuel Paradis
Publisher : Springer Science & Business Media
Page : 386 pages
File Size : 49,5 Mb
Release : 2011-11-06
Category : Science
ISBN : 9781461417439
The increasing availability of molecular and genetic databases coupled with the growing power of computers gives biologists opportunities to address new issues, such as the patterns of molecular evolution, and re-assess old ones, such as the role of adaptation in species diversification. In the second edition, the book continues to integrate a wide variety of data analysis methods into a single and flexible interface: the R language. This open source language is available for a wide range of computer systems and has been adopted as a computational environment by many authors of statistical software. Adopting R as a main tool for phylogenetic analyses will ease the workflow in biologists' data analyses, ensure greater scientific repeatability, and enhance the exchange of ideas and methodological developments. The second edition is completed updated, covering the full gamut of R packages for this area that have been introduced to the market since its previous publication five years ago. There is also a new chapter on the simulation of evolutionary data. Graduate students and researchers in evolutionary biology can use this book as a reference for data analyses, whereas researchers in bioinformatics interested in evolutionary analyses will learn how to implement these methods in R. The book starts with a presentation of different R packages and gives a short introduction to R for phylogeneticists unfamiliar with this language. The basic phylogenetic topics are covered: manipulation of phylogenetic data, phylogeny estimation, tree drawing, phylogenetic comparative methods, and estimation of ancestral characters. The chapter on tree drawing uses R's powerful graphical environment. A section deals with the analysis of diversification with phylogenies, one of the author's favorite research topics. The last chapter is devoted to the development of phylogenetic methods with R and interfaces with other languages (C and C++). Some exercises conclude these chapters.
Author : Xuhua Xia
Publisher : CRC Press
Page : 366 pages
File Size : 40,6 Mb
Release : 2020-04-13
Category : Science
ISBN : 9780429759314
This volume, A Mathematical Primer of Molecular Phylogenetics, offers a unique perspective on a number of phylogenetic issues that have not been covered in detail in previous publications. The volume provides sufficient mathematical background for young mathematicians and computational scientists, as well as mathematically inclined biology students, to make a smooth entry into the expanding field of molecular phylogenetics. The book will also provide sufficient details for researchers in phylogenetics to understand the workings of existing software packages used. The volume offers comprehensive but detailed numerical illustrations to render difficult mathematical and computational concepts in molecular phylogenetics accessible to a variety of readers with different academic background. The text includes examples of solved problems after each chapter, which will be particularly helpful for fourth-year undergraduates, postgraduates, and postdoctoral students in biology, mathematics and computer sciences. Researchers in molecular biology and evolution will find it very informative as well.
Author : Xuhua Xia
Publisher : CRC Press
Page : 190 pages
File Size : 41,8 Mb
Release : 2020-04-13
Category : Science
ISBN : 9780429759307
This volume, A Mathematical Primer of Molecular Phylogenetics, offers a unique perspective on a number of phylogenetic issues that have not been covered in detail in previous publications. The volume provides sufficient mathematical background for young mathematicians and computational scientists, as well as mathematically inclined biology students, to make a smooth entry into the expanding field of molecular phylogenetics. The book will also provide sufficient details for researchers in phylogenetics to understand the workings of existing software packages used. The volume offers comprehensive but detailed numerical illustrations to render difficult mathematical and computational concepts in molecular phylogenetics accessible to a variety of readers with different academic background. The text includes examples of solved problems after each chapter, which will be particularly helpful for fourth-year undergraduates, postgraduates, and postdoctoral students in biology, mathematics and computer sciences. Researchers in molecular biology and evolution will find it very informative as well.
Author : Liam J. Revell,Luke J. Harmon
Publisher : Princeton University Press
Page : 440 pages
File Size : 44,6 Mb
Release : 2022-09-06
Category : Science
ISBN : 9780691219035
An authoritative introduction to the latest comparative methods in evolutionary biology Phylogenetic comparative methods are a suite of statistical approaches that enable biologists to analyze and better understand the evolutionary tree of life, and shed vital new light on patterns of divergence and common ancestry among all species on Earth. This textbook shows how to carry out phylogenetic comparative analyses in the R statistical computing environment. Liam Revell and Luke Harmon provide an incisive conceptual overview of each method along with worked examples using real data and challenge problems that encourage students to learn by doing. By working through this book, students will gain a solid foundation in these methods and develop the skills they need to interpret patterns in the tree of life. Covers every major method of modern phylogenetic comparative analysis in RExplains the basics of R and discusses topics such as trait evolution, diversification, trait-dependent diversification, biogeography, and visualizationFeatures a wealth of exercises and challenge problemsServes as an invaluable resource for students and researchers, with applications in ecology, evolution, anthropology, disease transmission, conservation biology, and a host of other areasWritten by two of today’s leading developers of phylogenetic comparative methods
Author : Ziheng Yang
Publisher : Oxford University Press
Page : 509 pages
File Size : 52,8 Mb
Release : 2014
Category : Science
ISBN : 9780199602605
This book presents and explains modern statistical methods and computational algorithms for the comparative analysis of genetic sequence data in the fields of molecular evolution, molecular phylogenetics, statistical phylogeography, and comparative genomics. The book offers numerous examples of real data analysis and numerical calculations to illustrate the theory, in addition to the working problems at the end of each chapter. The coverage of maximum likelihood and Bayesian methods are in particular up-to-date, comprehensive, and authoritative.
Author : Norman MacLeod,Peter L. Forey
Publisher : CRC Press
Page : 318 pages
File Size : 43,6 Mb
Release : 2002-02-07
Category : Nature
ISBN : 9780203165171
Generally, biologists and mathematicians who study the shape and form of organisms have largely been working in isolation from those who work on evolutionary relationships through the analysis of common characteristics. Increasingly however, dialogue between the two communities is beginning to develop - but other than a handful of journal papers, t
Author : Rasmus Nielsen
Publisher : Springer Science & Business Media
Page : 503 pages
File Size : 42,5 Mb
Release : 2006-05-06
Category : Science
ISBN : 9780387277332
In the field of molecular evolution, inferences about past evolutionary events are made using molecular data from currently living species. With the availability of genomic data from multiple related species, molecular evolution has become one of the most active and fastest growing fields of study in genomics and bioinformatics. Most studies in molecular evolution rely heavily on statistical procedures based on stochastic process modelling and advanced computational methods including high-dimensional numerical optimization and Markov Chain Monte Carlo. This book provides an overview of the statistical theory and methods used in studies of molecular evolution. It includes an introductory section suitable for readers that are new to the field, a section discussing practical methods for data analysis, and more specialized sections discussing specific models and addressing statistical issues relating to estimation and model choice. The chapters are written by the leaders of field and they will take the reader from basic introductory material to the state-of-the-art statistical methods. This book is suitable for statisticians seeking to learn more about applications in molecular evolution and molecular evolutionary biologists with an interest in learning more about the theory behind the statistical methods applied in the field. The chapters of the book assume no advanced mathematical skills beyond basic calculus, although familiarity with basic probability theory will help the reader. Most relevant statistical concepts are introduced in the book in the context of their application in molecular evolution, and the book should be accessible for most biology graduate students with an interest in quantitative methods and theory. Rasmus Nielsen received his Ph.D. form the University of California at Berkeley in 1998 and after a postdoc at Harvard University, he assumed a faculty position in Statistical Genomics at Cornell University. He is currently an Ole Rømer Fellow at the University of Copenhagen and holds a Sloan Research Fellowship. His is an associate editor of the Journal of Molecular Evolution and has published more than fifty original papers in peer-reviewed journals on the topic of this book. From the reviews: "...Overall this is a very useful book in an area of increasing importance." Journal of the Royal Statistical Society "I find Statistical Methods in Molecular Evolution very interesting and useful. It delves into problems that were considered very difficult just several years ago...the book is likely to stimulate the interest of statisticians that are unaware of this exciting field of applications. It is my hope that it will also help the 'wet lab' molecular evolutionist to better understand mathematical and statistical methods." Marek Kimmel for the Journal of the American Statistical Association, September 2006 "Who should read this book? We suggest that anyone who deals with molecular data (who does not?) and anyone who asks evolutionary questions (who should not?) ought to consult the relevant chapters in this book." Dan Graur and Dror Berel for Biometrics, September 2006 "Coalescence theory facilitates the merger of population genetics theory with phylogenetic approaches, but still, there are mostly two camps: phylogeneticists and population geneticists. Only a few people are moving freely between them. Rasmus Nielsen is certainly one of these researchers, and his work so far has merged many population genetic and phylogenetic aspects of biological research under the umbrella of molecular evolution. Although Nielsen did not contribute a chapter to his book, his work permeates all its chapters. This book gives an overview of his interests and current achievements in molecular evolution. In short, this book should be on your bookshelf." Peter Beerli for Evolution, 60(2), 2006
Author : Masatoshi Nei,Sudhir Kumar
Publisher : Oxford University Press, USA
Page : 348 pages
File Size : 52,8 Mb
Release : 2000
Category : Evolutionary genetics
ISBN : 9780195135855
This is a treatment of the statistical methods used in molecular evolution and phylogenetics study. Newly developed statistical methods for studying the molecular clock, adaptive evolution and inference of ancestral amino acid sequences are also included.
Author : Avner Friedman
Publisher : Unknown
Page : 0 pages
File Size : 44,7 Mb
Release : 2008
Category : Biological models
ISBN : 8354074331
The book offers an easy introduction to fast growing research areas in evolution of species, population genetics, ecological models, and population dynamics. The first two chapters review the concept and methodologies of phylogenetic trees; computational schemes and illustrations are given, including applications such as tracing the origin of SARS and influenza. The third chapter introduces the reader to ecological models, including predator-prey models. This chapter includes and introduction to reaction-diffusion equations, which are used to analyze the ecological models. The next chapter reviews a broad range of ongoing research in population dynamics, including evolution of dispersal models; it also features interesting mathematical theorems and lists open problems. The final chapter deals with gene frequencies under the action of migration and selection. The book is addressed to readers at the level of grad students and researchers. A background in PDEs is provided.
Author : Hugo van den Berg
Publisher : Unknown
Page : 539 pages
File Size : 44,5 Mb
Release : 2015-07-27
Category : SCIENCE
ISBN : 0750310944
Written for researchers and postgraduate students with a background in physics or applied mathematics and a desire to apply their skills to problems in the life sciences, this beautifully illustrated book includes a number of introductory chapters on genetics and cell biology, phylogeny and development, mathematical probability, and inferential statistics. In addition, appendices summarise background material on speciation and systematics, controversies surrounding evolutionary thinking, dynamical systems, optimality arguments, as well as statistical and thermal physics.