Download or read book Bioinformatics for Evolutionary Biologists written by Bernhard Haubold and published by Springer. This book was released on 2018-01-31 with total page 0 pages. Available in PDF, EPUB and Kindle. Book excerpt: This self-contained textbook covers fundamental aspects of sequence analysis in evolutionary biology, including sequence alignment, phylogeny reconstruction, and coalescent simulation. It addresses these aspects through a series of over 400 computer problems, ranging from elementary to research level, to enable learning by doing. Students solve the problems in the same computational environment used for decades in science – the UNIX command line. This is available on all three major operating systems for PCs: Microsoft Windows, Mac-OSX, and Linux. To learn using this powerful system, students analyze sample sequence data by applying generic tools, bioinformatics software, and over 40 programs specifically written for this course. The solutions for all problems are included, making the book ideal for self-study. Problems are grouped into sections headed by an introduction and a list of new concepts and programs. By using practical computing to explore evolutionary concepts and sequence data, the book enables readers to tackle their own computational problems.

Download or read book Evolutionary Bioinformatics written by Donald R. Forsdyke and published by Springer Science & Business Media. This book was released on 2010-11-11 with total page 511 pages. Available in PDF, EPUB and Kindle. Book excerpt: Books on bioinformatics which began appearing in the mid 80s primarily served gene-hunters, and biologists who wished to construct family trees showing tidy lines of descent. Given the great pharmaceutical industry interest in genes, this trend has continued in most subsequent texts. These deal extensively with the exciting topic of gene discovery and searching databases, but hardly consider genomes as information channels through which multiple forms and levels of information, including genic information, have passed through the generations.

Download or read book Introduction to Computational Biology written by Bernhard Haubold and published by Springer Science & Business Media. This book was released on 2006-08-09 with total page 329 pages. Available in PDF, EPUB and Kindle. Book excerpt: Written with the advanced undergraduate in mind, this book introduces into the field of Bioinformatics. The authors explain the computational and conceptional background to the analysis of large-scale sequence data. Many of the corresponding analysis methods are rooted in evolutionary thinking, which serves as a common thread throughout the book. The focus is on methods of comparative genomics and subjects covered include: alignments, gene finding, phylogeny, and the analysis of single nucleotide polymorphisms (SNPs). The volume contains exercises, questions & answers to selected problems.

Download or read book Bioinformatics for Evolutionary Biologists written by Bernhard Haubold and published by Springer Nature. This book was released on 2023-02-03 with total page 410 pages. Available in PDF, EPUB and Kindle. Book excerpt: This self-contained textbook covers fundamental aspects of sequence analysis with special emphasis on evolutionary biology, including sequence alignment, exact matching, phylogeny reconstruction, and coalescent simulation. It addresses these topics through a series of over 800 computer problems, ranging from elementary to research level, to enable learning by doing. Students solve the problems in the same computational environment used for decades in science – the Unix command line. This is available on all four major operating systems for PCs: Windows, macOS, chromeOS, and Linux. To learn using this powerful system, students analyze sample sequence data by applying generic tools, bioinformatics software, and over 50 programs specifically written for this course and available via GitHub. The solutions for all problems are included, making the book ideal for self-study. Problems are grouped into sections headed by an introduction and a list of new terms. By using practical computing to explore sequence data in an evolutionary context, the book enables readers to tackle their own computational problems.

Download or read book Advances in Bioinformatics written by Vijai Singh and published by Springer Nature. This book was released on with total page 365 pages. Available in PDF, EPUB and Kindle. Book excerpt:

Download or read book Bioinformatics and Molecular Evolution written by Paul G. Higgs and published by John Wiley & Sons. This book was released on 2013-04-30 with total page 532 pages. Available in PDF, EPUB and Kindle. Book excerpt: In the current era of complete genome sequencing, Bioinformatics and Molecular Evolution provides an up-to-date and comprehensive introduction to bioinformatics in the context of evolutionary biology. This accessible text: provides a thorough examination of sequence analysis, biological databases, pattern recognition, and applications to genomics, microarrays, and proteomics emphasizes the theoretical and statistical methods used in bioinformatics programs in a way that is accessible to biological science students places bioinformatics in the context of evolutionary biology, including population genetics, molecular evolution, molecular phylogenetics, and their applications features end-of-chapter problems and self-tests to help students synthesize the materials and apply their understanding is accompanied by a dedicated website - www.blackwellpublishing.com/higgs - containing downloadable sequences, links to web resources, answers to self-test questions, and all artwork in downloadable format (artwork also available to instructors on CD-ROM). This important textbook will equip readers with a thorough understanding of the quantitative methods used in the analysis of molecular evolution, and will be essential reading for advanced undergraduates, graduates, and researchers in molecular biology, genetics, genomics, computational biology, and bioinformatics courses.

Download or read book Encyclopedia of Evolutionary Biology written by and published by Academic Press. This book was released on 2016-04-14 with total page 2138 pages. Available in PDF, EPUB and Kindle. Book excerpt: Encyclopedia of Evolutionary Biology, Four Volume Set is the definitive go-to reference in the field of evolutionary biology. It provides a fully comprehensive review of the field in an easy to search structure. Under the collective leadership of fifteen distinguished section editors, it is comprised of articles written by leading experts in the field, providing a full review of the current status of each topic. The articles are up-to-date and fully illustrated with in-text references that allow readers to easily access primary literature. While all entries are authoritative and valuable to those with advanced understanding of evolutionary biology, they are also intended to be accessible to both advanced undergraduate and graduate students. Broad topics include the history of evolutionary biology, population genetics, quantitative genetics; speciation, life history evolution, evolution of sex and mating systems, evolutionary biogeography, evolutionary developmental biology, molecular and genome evolution, coevolution, phylogenetic methods, microbial evolution, diversification of plants and fungi, diversification of animals, and applied evolution. Presents fully comprehensive content, allowing easy access to fundamental information and links to primary research Contains concise articles by leading experts in the field that ensures current coverage of each topic Provides ancillary learning tools like tables, illustrations, and multimedia features to assist with the comprehension process

Download or read book Modern Phylogenetic Comparative Methods and Their Application in Evolutionary Biology written by László Zsolt Garamszegi and published by Springer. This book was released on 2014-07-29 with total page 553 pages. Available in PDF, EPUB and Kindle. Book excerpt: Phylogenetic comparative approaches are powerful analytical tools for making evolutionary inferences from interspecific data and phylogenies. The phylogenetic toolkit available to evolutionary biologists is currently growing at an incredible speed, but most methodological papers are published in the specialized statistical literature and many are incomprehensible for the user community. This textbook provides an overview of several newly developed phylogenetic comparative methods that allow to investigate a broad array of questions on how phenotypic characters evolve along the branches of phylogeny and how such mechanisms shape complex animal communities and interspecific interactions. The individual chapters were written by the leading experts in the field and using a language that is accessible for practicing evolutionary biologists. The authors carefully explain the philosophy behind different methodologies and provide pointers – mostly using a dynamically developing online interface – on how these methods can be implemented in practice. These “conceptual” and “practical” materials are essential for expanding the qualification of both students and scientists, but also offer a valuable resource for educators. Another value of the book are the accompanying online resources (available at: http://www.mpcm-evolution.com), where the authors post and permanently update practical materials to help embed methods into practice.

Download or read book Evolutionary Genomics and Systems Biology written by Gustavo Caetano-Anollés and published by Wiley-Blackwell. This book was released on 2010-07-08 with total page 330 pages. Available in PDF, EPUB and Kindle. Book excerpt: A comprehensive, authoritative look at an emergent area in post-genomic science, Evolutionary genomics is an up-and-coming, complex field that attempts to explain the biocomplexity of the living world. Evolutionary Genomics and Systems Biology is the first full-length book to blend established and emerging concepts in bioinformatics, evolution, genomics, and structural biology, with the integrative views of network and systems biology. Three key aspects of evolutionary genomics and systems biology are covered in clear detail: the study of genomic history, i.e., understanding organismal evolution at the genomic level; the study of macromolecular complements, which encompasses the evolution of the protein and RNA machinery that propels life; and the evolutionary and dynamic study of wiring diagrams—macromolecular components in interaction—in the context of genomic complements. The book also features: A solid, comprehensive treatment of phylogenomics, the evolution of genomes, and the evolution of biological networks, within the framework of systems biology A special section on RNA biology—translation, evolution of structure, and micro RNA and regulation of gene expression Chapters on the mapping of genotypes to phenotypes, the role of information in biology, protein architecture and biological function, chromosomal rearrangements, and biological networks and disease Contributions by leading authorities on each topic Evolutionary Genomics and Systems Biology is an ideal book for students and professionals in genomics, bioinformatics, evolution, structural biology, complexity, origins of life, systematic biology, and organismal diversity, as well as those individuals interested in aspects of biological sciences as they interface with chemistry, physics, and computer science and engineering.

Download or read book Data Analysis in Molecular Biology and Evolution written by Xuhua Xia and published by Springer Science & Business Media. This book was released on 2007-05-08 with total page 284 pages. Available in PDF, EPUB and Kindle. Book excerpt: Data Analysis in Molecular Biology and Evolution introduces biologists to DAMBE, a proprietary, user-friendly computer program for molecular data analysis. The unique combination of this book and software will allow biologists not only to understand the rationale behind a variety of computational tools in molecular biology and evolution, but also to gain instant access to these tools for use in their laboratories. Data Analysis in Molecular Biology and Evolution serves as an excellent resource for advanced level undergraduates or graduates as well as for professionals working in the field.

Download or read book Human Evolutionary Biology written by Michael P. Muehlenbein and published by Cambridge University Press. This book was released on 2010-07-29 with total page pages. Available in PDF, EPUB and Kindle. Book excerpt: Wide-ranging and inclusive, this text provides an invaluable review of an expansive selection of topics in human evolution, variation and adaptability for professionals and students in biological anthropology, evolutionary biology, medical sciences and psychology. The chapters are organized around four broad themes, with sections devoted to phenotypic and genetic variation within and between human populations, reproductive physiology and behavior, growth and development, and human health from evolutionary and ecological perspectives. An introductory section provides readers with the historical, theoretical and methodological foundations needed to understand the more complex ideas presented later. Two hundred discussion questions provide starting points for class debate and assignments to test student understanding.

Download or read book Sperm Biology written by Scott S. Pitnick and published by Academic Press. This book was released on 2008-11-21 with total page 683 pages. Available in PDF, EPUB and Kindle. Book excerpt: Sperm Biology represents the first analysis of the evolutionary significance of sperm phenotypes and derived sperm traits and the possible selection pressures responsible for sperm-egg coevolution. An understanding of sperm evolution is fast developing and promises to shed light on many topics from basic reproductive biology to the evolutionary process itself as well as the sperm proteome, the sperm genome and the quantitative genetics of sperm. The Editors have identified 15 topics of current interest and biological significance to cover all aspects of this bizarre, fascinating and important subject. It comprises the most comprehensive and up-to-date review of the evolution of sperm and pointers for future research, written by experts in both sperm biology and evolutionary biology. The combination of evolution and sperm is a potent mix, and this is the definitive account. - The first review survey of this emerging field - Written by experts from a broad array of disciplines from the physiological and biomedical to the ecological and evolutionary - Sheds light on the intricacies of reproduction and the coevolution of sperm, egg and reproductive behavior

Download or read book Environmental Epigenetics written by L. Joseph Su and published by Springer. This book was released on 2015-05-18 with total page 327 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book examines the toxicological and health implications of environmental epigenetics and provides knowledge through an interdisciplinary approach. Included in this volume are chapters outlining various environmental risk factors such as phthalates and dietary components, life states such as pregnancy and ageing, hormonal and metabolic considerations and specific disease risks such as cancer cardiovascular diseases and other non-communicable diseases. Environmental Epigenetics imparts integrative knowledge of the science of epigenetics and the issues raised in environmental epidemiology. This book is intended to serve both as a reference compendium on environmental epigenetics for scientists in academia, industry and laboratories and as a textbook for graduate level environmental health courses. Environmental Epigenetics imparts integrative knowledge of the science of epigenetics and the issues raised in environmental epidemiology. This book is intended to serve both as a reference compendium on environmental epigenetics for scientists in academia, industry and laboratories and as a textbook for graduate level environmental health courses.

Download or read book Statistical Methods in Molecular Evolution written by Rasmus Nielsen and published by Springer Science & Business Media. This book was released on 2006-05-06 with total page 503 pages. Available in PDF, EPUB and Kindle. Book excerpt: 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

Download or read book Arthropod Biology and Evolution written by Alessandro Minelli and published by Springer Science & Business Media. This book was released on 2013-04-11 with total page 530 pages. Available in PDF, EPUB and Kindle. Book excerpt: More than two thirds of all living organisms described to date belong to the phylum Arthropoda. But their diversity, as measured in terms of species number, is also accompanied by an amazing disparity in terms of body form, developmental processes, and adaptations to every inhabitable place on Earth, from the deepest marine abysses to the earth surface and the air. The Arthropoda also include one of the most fashionable and extensively studied of all model organisms, the fruit-fly, whose name is not only linked forever to Mendelian and population genetics, but has more recently come back to centre stage as one of the most important and more extensively investigated models in developmental genetics. This approach has completely changed our appreciation of some of the most characteristic traits of arthropods as are the origin and evolution of segments, their regional and individual specialization, and the origin and evolution of the appendages. At approximately the same time as developmental genetics was eventually turning into the major agent in the birth of evolutionary developmental biology (evo-devo), molecular phylogenetics was challenging the traditional views on arthropod phylogeny, including the relationships among the four major groups: insects, crustaceans, myriapods, and chelicerates. In the meantime, palaeontology was revealing an amazing number of extinct forms that on the one side have contributed to a radical revisitation of arthropod phylogeny, but on the other have provided evidence of a previously unexpected disparity of arthropod and arthropod-like forms that often challenge a clear-cut delimitation of the phylum.

Download or read book Topological Data Analysis for Genomics and Evolution written by Raúl Rabadán and published by Cambridge University Press. This book was released on 2019-10-31 with total page 521 pages. Available in PDF, EPUB and Kindle. Book excerpt: Biology has entered the age of Big Data. The technical revolution has transformed the field, and extracting meaningful information from large biological data sets is now a central methodological challenge. Algebraic topology is a well-established branch of pure mathematics that studies qualitative descriptors of the shape of geometric objects. It aims to reduce questions to a comparison of algebraic invariants, such as numbers, which are typically easier to solve. Topological data analysis is a rapidly-developing subfield that leverages the tools of algebraic topology to provide robust multiscale analysis of data sets. This book introduces the central ideas and techniques of topological data analysis and its specific applications to biology, including the evolution of viruses, bacteria and humans, genomics of cancer and single cell characterization of developmental processes. Bridging two disciplines, the book is for researchers and graduate students in genomics and evolutionary biology alongside mathematicians interested in applied topology.

Download or read book Fundamentals of Bioinformatics and Computational Biology written by Gautam B. Singh and published by Springer. This book was released on 2014-09-24 with total page 345 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book offers comprehensive coverage of all the core topics of bioinformatics, and includes practical examples completed using the MATLAB bioinformatics toolboxTM. It is primarily intended as a textbook for engineering and computer science students attending advanced undergraduate and graduate courses in bioinformatics and computational biology. The book develops bioinformatics concepts from the ground up, starting with an introductory chapter on molecular biology and genetics. This chapter will enable physical science students to fully understand and appreciate the ultimate goals of applying the principles of information technology to challenges in biological data management, sequence analysis, and systems biology. The first part of the book also includes a survey of existing biological databases, tools that have become essential in today’s biotechnology research. The second part of the book covers methodologies for retrieving biological information, including fundamental algorithms for sequence comparison, scoring, and determining evolutionary distance. The main focus of the third part is on modeling biological sequences and patterns as Markov chains. It presents key principles for analyzing and searching for sequences of significant motifs and biomarkers. The last part of the book, dedicated to systems biology, covers phylogenetic analysis and evolutionary tree computations, as well as gene expression analysis with microarrays. In brief, the book offers the ideal hands-on reference guide to the field of bioinformatics and computational biology.