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Inferring Phylogenies Ebook
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Book Synopsis Inferring Phylogenies by : Joseph Felsenstein
Download or read book Inferring Phylogenies written by Joseph Felsenstein and published by Sinauer Associates Incorporated. This book was released on 2004-01 with total page 664 pages. Available in PDF, EPUB and Kindle. Book excerpt: Phylogenies, or evolutionary trees, are the basic structures necessary to think about and analyze differences between species. Statistical, computational, and algorithmic work in this field has been ongoing for four decades now, and there have been great advances in understanding. Yet no book has summarized this work. Inferring Phylogenies does just that in a single, compact volume. Phylogenies are inferred with various kinds of data. This book concentrates on some of the central ones: discretely coded characters, molecular sequences, gene frequencies, and quantitative traits. Also covered are restriction sites, RAPDs, and microsatellites.
Book Synopsis Bioinformatics and Phylogenetics by : Tandy Warnow
Download or read book Bioinformatics and Phylogenetics written by Tandy Warnow and published by Springer. This book was released on 2019-04-08 with total page 426 pages. Available in PDF, EPUB and Kindle. Book excerpt: This volume presents a compelling collection of state-of-the-art work in algorithmic computational biology, honoring the legacy of Professor Bernard M.E. Moret in this field. Reflecting the wide-ranging influences of Prof. Moret’s research, the coverage encompasses such areas as phylogenetic tree and network estimation, genome rearrangements, cancer phylogeny, species trees, divide-and-conquer strategies, and integer linear programming. Each self-contained chapter provides an introduction to a cutting-edge problem of particular computational and mathematical interest. Topics and features: addresses the challenges in developing accurate and efficient software for the NP-hard maximum likelihood phylogeny estimation problem; describes the inference of species trees, covering strategies to scale phylogeny estimation methods to large datasets, and the construction of taxonomic supertrees; discusses the inference of ultrametric distances from additive distance matrices, and the inference of ancestral genomes under genome rearrangement events; reviews different techniques for inferring evolutionary histories in cancer, from the use of chromosomal rearrangements to tumor phylogenetics approaches; examines problems in phylogenetic networks, including questions relating to discrete mathematics, and issues of statistical estimation; highlights how evolution can provide a framework within which to understand comparative and functional genomics; provides an introduction to Integer Linear Programming and its use in computational biology, including its use for solving the Traveling Salesman Problem. Offering an invaluable source of insights for computer scientists, applied mathematicians, and statisticians, this illuminating volume will also prove useful for graduate courses on computational biology and bioinformatics.
Author :Olaf R.P. Bininda-Emonds Publisher :Springer Science & Business Media ISBN 13 :1402023308 Total Pages :547 pages Book Rating :4.4/5 (2 download)
Book Synopsis Phylogenetic Supertrees by : Olaf R.P. Bininda-Emonds
Download or read book Phylogenetic Supertrees written by Olaf R.P. Bininda-Emonds and published by Springer Science & Business Media. This book was released on 2004-05-31 with total page 547 pages. Available in PDF, EPUB and Kindle. Book excerpt: This is the first book on "phylogenetic supertrees", a recent, but controversial development for inferring evolutionary trees. Rather than analyze the combined primary character data directly, supertree construction proceeds by combining the tree topologies derived from those data. This difference in strategy has allowed for the exciting possibility of larger, more complete phylogenies than are otherwise currently possible, with the potential to revolutionize evolutionarily-based research. This book provides a comprehensive look at supertrees, ranging from the methods used to build supertrees to the significance of supertrees to bioinformatic and biological research. Reviews of many the major supertree methods are provided and four new techniques, including a Bayesian implementation of supertrees, are described for the first time. The far-reaching impact of supertrees on biological research is highlighted both in general terms and through specific examples from diverse clades such as flowering plants, even-toed ungulates, and primates. The book also critically examines the many outstanding challenges and problem areas for this relatively new field, showing the way for supertree construction in the age of genomics. Interdisciplinary contributions from the majority of the leading authorities on supertree construction in all areas of the bioinformatic community (biology, computer sciences, and mathematics) will ensure that this book is a valuable reference with wide appeal to anyone interested in phylogenetic inference.
Book Synopsis Analysis of Phylogenetics and Evolution with R by : Emmanuel Paradis
Download or read book Analysis of Phylogenetics and Evolution with R written by Emmanuel Paradis and published by Springer Science & Business Media. This book was released on 2006-11-25 with total page 221 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book integrates a wide variety of data analysis methods into a single and flexible interface: the R language. 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. 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.
Book Synopsis Molecular Evolution by : Roderick D.M. Page
Download or read book Molecular Evolution written by Roderick D.M. Page and published by John Wiley & Sons. This book was released on 2009-07-14 with total page 352 pages. Available in PDF, EPUB and Kindle. Book excerpt: The study of evolution at the molecular level has given the subject of evolutionary biology a new significance. Phylogenetic 'trees' of gene sequences are a powerful tool for recovering evolutionary relationships among species, and can be used to answer a broad range of evolutionary and ecological questions. They are also beginning to permeate the medical sciences. In this book, the authors approach the study of molecular evolution with the phylogenetic tree as a central metaphor. This will equip students and professionals with the ability to see both the evolutionary relevance of molecular data, and the significance evolutionary theory has for molecular studies. The book is accessible yet sufficiently detailed and explicit so that the student can learn the mechanics of the procedures discussed. The book is intended for senior undergraduate and graduate students taking courses in molecular evolution/phylogenetic reconstruction. It will also be a useful supplement for students taking wider courses in evolution, as well as a valuable resource for professionals. First student textbook of phylogenetic reconstruction which uses the tree as a central metaphor of evolution. Chapter summaries and annotated suggestions for further reading. Worked examples facilitate understanding of some of the more complex issues. Emphasis on clarity and accessibility.
Download or read book EBOOK: Biology written by Peter Raven and published by McGraw Hill. This book was released on 2013-02-16 with total page 1410 pages. Available in PDF, EPUB and Kindle. Book excerpt: Committed to Excellence in the Landmark Tenth Edition. This edition continues the evolution of Raven & Johnson’s Biology. The author team is committed to continually improving the text, keeping the student and learning foremost. We have integrated new pedagogical features to expand the students’ learning process and enhance their experience in the ebook. This latest edition of the text maintains the clear, accessible, and engaging writing style of past editions with the solid framework of pedagogy that highlights an emphasis on evolution and scientific inquiry that have made this a leading textbook for students majoring in biology and have been enhanced in this landmark Tenth edition. This emphasis on the organizing power of evolution is combined with an integration of the importance of cellular, molecular biology and genomics to offer our readers a text that is student friendly and current. Our author team is committed to producing the best possible text for both student and faculty. The lead author, Kenneth Mason, University of Iowa, has taught majors biology at three different major public universities for more than fifteen years. Jonathan Losos, Harvard University, is at the cutting edge of evolutionary biology research, and Susan Singer, Carleton College, has been involved in science education policy issues on a national level. All three authors bring varied instructional and content expertise to the tenth edition of Biology.
Book Synopsis Inferring Phylogenies EBook by : Joseph Felsenstein
Download or read book Inferring Phylogenies EBook written by Joseph Felsenstein and published by . This book was released on 2003 with total page 580 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Download or read book Phylogenetics written by Charles Semple and published by Oxford University Press on Demand. This book was released on 2003 with total page 258 pages. Available in PDF, EPUB and Kindle. Book excerpt: '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.
Download or read book Biology Ebook written by Raven and published by McGraw Hill. This book was released on 2016-05-16 with total page 1410 pages. Available in PDF, EPUB and Kindle. Book excerpt: Biology Ebook
Book Synopsis The Invertebrate Tree of Life by : Gonzalo Giribet
Download or read book The Invertebrate Tree of Life written by Gonzalo Giribet and published by Princeton University Press. This book was released on 2020-03-03 with total page 608 pages. Available in PDF, EPUB and Kindle. Book excerpt: The most up-to-date book on invertebrates, providing a new framework for understanding their place in the tree of life In The Invertebrate Tree of Life, Gonzalo Giribet and Gregory Edgecombe, leading authorities on invertebrate biology and paleontology, utilize phylogenetics to trace the evolution of animals from their origins in the Proterozoic to today. Phylogenetic relationships between and within the major animal groups are based on the latest molecular analyses, which are increasingly genomic in scale and draw on the soundest methods of tree reconstruction. Giribet and Edgecombe evaluate the evolution of animal organ systems, exploring how current debates about phylogenetic relationships affect the ways in which aspects of invertebrate nervous systems, reproductive biology, and other key features are inferred to have developed. The authors review the systematics, natural history, anatomy, development, and fossil records of all major animal groups, employing seminal historical works and cutting-edge research in evolutionary developmental biology, genomics, and advanced imaging techniques. Overall, they provide a synthetic treatment of all animal phyla and discuss their relationships via an integrative approach to invertebrate systematics, anatomy, paleontology, and genomics. With numerous detailed illustrations and phylogenetic trees, The Invertebrate Tree of Life is a must-have reference for biologists and anyone interested in invertebrates, and will be an ideal text for courses in invertebrate biology. A must-have and up-to-date book on invertebrate biology Ideal as both a textbook and reference Suitable for courses in invertebrate biology Richly illustrated with black-and-white and color images and abundant tree diagrams Written by authorities on invertebrate evolution and phylogeny Factors in the latest understanding of animal genomics and original fossil material
Book Synopsis Biological Systematics by : Randall T. Schuh
Download or read book Biological Systematics written by Randall T. Schuh and published by Cornell University Press. This book was released on 2011-04-15 with total page 326 pages. Available in PDF, EPUB and Kindle. Book excerpt: Biological Systematics: Principles and Applications draws equally from examples in botany and zoology to provide a modern account of cladistic principles and techniques. It is a core systematics textbook with a focus on parsimony-based approaches for students and biologists interested in systematics and comparative biology. Randall T. Schuh and Andrew V. Z. Brower cover: -the history and philosophy of systematics and nomenclature; -the mechanics and methods of analysis and evaluation of results; -the practical applications of results and wider relevance within biological classification, biogeography, adaptation and coevolution, biodiversity, and conservation; and -software applications. This new and thoroughly revised edition reflects the exponential growth in the use of DNA sequence data in systematics. New data techniques and a notable increase in the number of examples from molecular systematics will be of interest to students increasingly involved in molecular and genetic work.
Book Synopsis A Mathematical Primer of Molecular Phylogenetics by : Xuhua Xia
Download or read book A Mathematical Primer of Molecular Phylogenetics written by Xuhua Xia and published by CRC Press. This book was released on 2020-04-13 with total page 366 pages. Available in PDF, EPUB and Kindle. Book excerpt: 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.
Download or read book Ebook: Biology written by BROOKER and published by McGraw Hill. This book was released on 2014-09-16 with total page 1423 pages. Available in PDF, EPUB and Kindle. Book excerpt: Ebook: Biology
Book Synopsis Molecular Evolution and Phylogenetics by : Masatoshi Nei
Download or read book Molecular Evolution and Phylogenetics written by Masatoshi Nei and published by Oxford University Press. This book was released on 2000-07-27 with total page 444 pages. Available in PDF, EPUB and Kindle. Book excerpt: During the last ten years, remarkable progress has occurred in the study of molecular evolution. Among the most important factors that are responsible for this progress are the development of new statistical methods and advances in computational technology. In particular, phylogenetic analysis of DNA or protein sequences has become a powerful tool for studying molecular evolution. Along with this developing technology, the application of the new statistical and computational methods has become more complicated and there is no comprehensive volume that treats these methods in depth. Molecular Evolution and Phylogenetics fills this gap and present various statistical methods that are easily accessible to general biologists as well as biochemists, bioinformatists and graduate students. The text covers measurement of sequence divergence, construction of phylogenetic trees, statistical tests for detection of positive Darwinian selection, inference of ancestral amino acid sequences, construction of linearized trees, and analysis of allele frequency data. Emphasis is given to practical methods of data analysis, and methods can be learned by working through numerical examples using the computer program MEGA2 that is provided.
Book Synopsis Tree Thinking: An Introduction to Phylogenetic Biology by : David A. Baum
Download or read book Tree Thinking: An Introduction to Phylogenetic Biology written by David A. Baum and published by Roberts. This book was released on 2012-08-10 with total page 0 pages. Available in PDF, EPUB and Kindle. Book excerpt: Baum and Smith, both professors evolutionary biology and researchers in the field of systematics, present this highly accessible introduction to phylogenetics and its importance in modern biology. Ever since Darwin, the evolutionary histories of organisms have been portrayed in the form of branching trees or “phylogenies.” However, the broad significance of the phylogenetic trees has come to be appreciated only quite recently. Phylogenetics has myriad applications in biology, from discovering the features present in ancestral organisms, to finding the sources of invasive species and infectious diseases, to identifying our closest living (and extinct) hominid relatives. Taking a conceptual approach, Tree Thinking introduces readers to the interpretation of phylogenetic trees, how these trees can be reconstructed, and how they can be used to answer biological questions. Examples and vivid metaphors are incorporated throughout, and each chapter concludes with a set of problems, valuable for both students and teachers. Tree Thinking is must-have textbook for any student seeking a solid foundation in this fundamental area of evolutionary biology.
Book Synopsis Biological Sequence Analysis by : Richard Durbin
Download or read book Biological Sequence Analysis written by Richard Durbin and published by Cambridge University Press. This book was released on 1998-04-23 with total page 372 pages. Available in PDF, EPUB and Kindle. Book excerpt: Probabilistic models are becoming increasingly important in analysing the huge amount of data being produced by large-scale DNA-sequencing efforts such as the Human Genome Project. For example, hidden Markov models are used for analysing biological sequences, linguistic-grammar-based probabilistic models for identifying RNA secondary structure, and probabilistic evolutionary models for inferring phylogenies of sequences from different organisms. This book gives a unified, up-to-date and self-contained account, with a Bayesian slant, of such methods, and more generally to probabilistic methods of sequence analysis. Written by an interdisciplinary team of authors, it aims to be accessible to molecular biologists, computer scientists, and mathematicians with no formal knowledge of the other fields, and at the same time present the state-of-the-art in this new and highly important field.
Book Synopsis The Caddisfly Family Phryganeidae (Trichoptera) by : Glenn B. Wiggins
Download or read book The Caddisfly Family Phryganeidae (Trichoptera) written by Glenn B. Wiggins and published by University of Toronto Press. This book was released on 1998-01-01 with total page 334 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book is an outstanding example of the museum tradition, offering the results of global research on the biosystematics of one of the families of case-making caddisflies, the Phryganeidae.
