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Phylogenomics
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Book Synopsis Phylogenomics by : Christoph Bleidorn
Download or read book Phylogenomics written by Christoph Bleidorn and published by Springer. This book was released on 2017-06-01 with total page 227 pages. Available in PDF, EPUB and Kindle. Book excerpt: This unique textbook provides a clear and concise overview of the key principles of the complex field of phylogenomics, with a particular focus on sequencing technologies that are crucial to studying and understanding interrelations in evolutionary genomics. It includes chapters dedicated to the analysis of nucleotide sequences using assembling and alignment methods and also discusses the main strategies for phylogenetic studies, systematic errors and their correction. This highly readable textbook is intended for graduate students and young researchers with an interest in phylogenetics and evolutionary developmental biology.
Book Synopsis Statistics and Truth by : Calyampudi Radhakrishna Rao
Download or read book Statistics and Truth written by Calyampudi Radhakrishna Rao and published by World Scientific. This book was released on 1997 with total page 213 pages. Available in PDF, EPUB and Kindle. Book excerpt: Written by one of the top most statisticians with experience in diverse fields of applications of statistics, the book deals with the philosophical and methodological aspects of information technology, collection and analysis of data to provide insight into a problem, whether it is scientific research, policy making by government or decision making in our daily lives.The author dispels the doubts that chance is an expression of our ignorance which makes accurate prediction impossible and illustrates how our thinking has changed with quantification of uncertainty by showing that chance is no longer the obstructor but a way of expressing our knowledge. Indeed, chance can create and help in the investigation of truth. It is eloquently demonstrated with numerous examples of applications that statistics is the science, technology and art of extracting information from data and is based on a study of the laws of chance. It is highlighted how statistical ideas played a vital role in scientific and other investigations even before statistics was recognized as a separate discipline and how statistics is now evolving as a versatile, powerful and inevitable tool in diverse fields of human endeavor such as literature, legal matters, industry, archaeology and medicine.Use of statistics to the layman in improving the quality of life through wise decision making is emphasized.
Download or read book Phylogenomics written by Rob DeSalle and published by CRC Press. This book was released on 2020-08-18 with total page 431 pages. Available in PDF, EPUB and Kindle. Book excerpt: Phylogenomics: A Primer, Second Edition is for advanced undergraduate and graduate biology students studying molecular biology, comparative biology, evolution, genomics, and biodiversity. This book explains the essential concepts underlying the storage and manipulation of genomics level data, construction of phylogenetic trees, population genetics, natural selection, the tree of life, DNA barcoding, and metagenomics. The inclusion of problem-solving exercises in each chapter provides students with a solid grasp of the important molecular and evolutionary questions facing modern biologists as well as the tools needed to answer them.
Download or read book Phylogenomics written by Igor Mokrousov and published by Elsevier. This book was released on 2024-05-17 with total page 614 pages. Available in PDF, EPUB and Kindle. Book excerpt: Phylogenomics: Foundations, Methods, and Pathogen Analysis offers a deep overview of phylogenomics as a field, compelling recent developments, and detailed methods and approaches for conducting new research. Early chapters introduce phylogenomic taxonomies of organisms and pathogens, phylogenomic networks, phylogenomics of virus virulence, and ancient DNA analysis, with a second section offering methods, detailed descriptions and step-by-step instruction in genome assembly and annotation, horizontal gene transfer studies, Bayesian evaluation, phylogenetic tree building, microbial evolution modeling, and molecular epidemiology. The book's final section offers various examples of phylogenomic analysis across medically significant bacteria and viruses, including Yersinia pestis, Salmonella, Shigella, Vibrio cholera, and Mycobacterium tuberculosis, amongst others. - Offers a full overview of phylogenetics and phylogenomics, from its foundations to methods and specialized case studies - Presents methodologies and algorithms for phylogenomic research studies and analyzes medically significant microorganisms - Considers examples of phylogenomic analysis across a range of medically significant pathogens - Includes chapter contributions from leading international experts
Book Synopsis Fungal Phylogenetics and Phylogenomics by :
Download or read book Fungal Phylogenetics and Phylogenomics written by and published by Academic Press. This book was released on 2017-11-17 with total page 342 pages. Available in PDF, EPUB and Kindle. Book excerpt: Fungal Phylogenetics and Phylogenomics, Volume 100, the latest release in the Advances in Genetics series, presents users with new chapters that delve into such topics as the Advances of fungal phylogenomics and the impact on fungal systematics, Data crunching for fungal phylogenomics: insights into data collection and phylogenetic inference based on genome data for fungi, Genomic and epigenomic traits of emerging fungal pathogens, Advances in fungal gene cluster diversity and evolution, Phylogenomics of Fusarium oxysporum species complex, Phylogenomic analyses of pathogenic yeasts, and the Phylogenetics and phylogenomics of rust fungi. The series continually publishes important reviews of the broadest interest to geneticists and their colleagues in affiliated disciplines, critically analyzing future directions. - Critically analyzes future directions for the study of clinical genetics - Written and edited by recognized leaders in the field - Presents new medical breakthroughs that are occurring as a result of advances in our knowledge of genetics
Book Synopsis Rise to the challenges in plastome phylogenomics by : Wenpan Dong
Download or read book Rise to the challenges in plastome phylogenomics written by Wenpan Dong and published by Frontiers Media SA. This book was released on 2023-06-23 with total page 133 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Book Synopsis Phylogenomic Data Acquisition by : W. Bryan Jennings
Download or read book Phylogenomic Data Acquisition written by W. Bryan Jennings and published by CRC Press. This book was released on 2016-12-12 with total page 235 pages. Available in PDF, EPUB and Kindle. Book excerpt: Phylogenomics is a rapidly growing field of study concerned with using genome-wide data—usually in the form of DNA sequence loci—to infer the evolution of genes, genomes, and the Tree of Life. Accordingly, this discipline connects many areas in biology including molecular and genomic evolution, systems biology, molecular systematics, phylogeography, conservation genetics, DNA barcoding, and others. With the advent of Next Generation Sequencing in addition to advances in computer hardware and software over the past decade, researchers can now generate unparalleled phylogenomic datasets that are helping to illuminate many areas in the life sciences. This book is an introduction to the principles and practices of gathering these data. Phylogenomic Data Acquisition: Principles and Practice is intended for a broad cross-section of biologists and anyone else interested in learning how to obtain phylogenomic data using the latest methods.
Book Synopsis Phylogenomics by : William J. Murphy
Download or read book Phylogenomics written by William J. Murphy and published by Springer Nature. This book was released on 2008-07-16 with total page 280 pages. Available in PDF, EPUB and Kindle. Book excerpt: The past decade has seen the emergence of a new field of scientific inquiry at the intersection of phylogenetics and genomics - phylogenomics. This collection of protocols and resources describes many of the molecular methods and bioinformatics tools that have brought this field to fruition.
Book Synopsis Next Generation Systematics by : Peter D. Olson
Download or read book Next Generation Systematics written by Peter D. Olson and published by Cambridge University Press. This book was released on 2016-06-16 with total page 363 pages. Available in PDF, EPUB and Kindle. Book excerpt: Cheap and plentiful genome sequence data is transforming biology, and will surely transform systematics. This volume explores how.
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.
Book Synopsis Phylogenomic Discordance in Plant Systematics by : Stefan Wanke
Download or read book Phylogenomic Discordance in Plant Systematics written by Stefan Wanke and published by Frontiers Media SA. This book was released on 2023-11-15 with total page 233 pages. Available in PDF, EPUB and Kindle. Book excerpt: Phylogenetics often uncovers contradicting hypotheses regarding the relationships within the same group of organisms, a phenomenon known since the beginning of the molecular systematics era. While, historically, single marker-based analyses produced discordance, nowadays entire cellular genomes or portions of the same genomic compartment conflict with others or the rest, respectively. In contrast to the beginning of the molecular systematics era, when adding markers and taxa offered a way out of systematic errors, genome inference-based incongruences cannot be addressed and explained easily. Disagreeing phylogenomic hypotheses might originate from various evolutionary processes, including but not limited to hybridization or incomplete lineage sorting, thereby leading to gene tree-versus species tree-associated discrepancies. Today, this can be expanded to genome discordance, where phylogenomic signals of organellar genomes (plastid, mitochondrial) and the nuclear genome disagree due to intrinsically different coalescent paths or phenomena like organelle capture.
Book Synopsis Molecular Evolution, Producing the Biochemical Data, Part B by :
Download or read book Molecular Evolution, Producing the Biochemical Data, Part B written by and published by Elsevier. This book was released on 2005-06-15 with total page 897 pages. Available in PDF, EPUB and Kindle. Book excerpt: The critically acclaimed laboratory standard, Methods in Enzymology, is one of the most highly respected publications in the field of biochemistry. Since 1955, each volume has been eagerly awaited, frequently consulted, and praised by researchers and reviewers alike. The series contains much material still relevant today - truly an essential publication for researchers in all fields of life sciences. Molecular Evolution Producing the Biochemical Data part B is a continuation of methods published in Part A (1993, volume 224). The work is a very methodological look at markers, templates, genomes, datasets and analyses used in studies of biological diversity.* One of the most highly respected publications in the field of biochemistry since 1955 * Frequently consulted, and praised by researchers and reviewers alike * Truly an essential publication for anyone in any field of the life sciences
Book Synopsis Insect Morphology and Phylogeny by : Rolf G. Beutel
Download or read book Insect Morphology and Phylogeny written by Rolf G. Beutel and published by Walter de Gruyter. This book was released on 2013-12-12 with total page 532 pages. Available in PDF, EPUB and Kindle. Book excerpt: In the last decades a remarkable renaissance has materialized in insect morphology, mainly triggered by the development of new cutting-edge technologies. This is an exciting time for biological synthesis where the mysteries and data derived from genomes can be combined with centuries of data from morphology and development. And, now, more than ever, detailed knowledge of morphology is essential to understanding the evolution of all groups of organisms. In this “age of phylogenomics” researchers rely on morphological data to support molecular findings, test complex evolutionary scenarios, and for placing fossil taxa. This textbook provides an in-depth treatment of the structures and the phylogeny of the megadiverse Hexapoda. The first part presents an up-to-date overview of general insect morphology with detailed drawings, scanning electron micrographs, and 3-D reconstructions. Also included is a chapter covering innovative morphological techniques (e.g., μ-computer tomography, 3-D modeling), brief treatments of insect development and phylogenetic methods, and a comprehensive morphological glossary. The second part is of a modern synthesis of insect systematics that includes taxon-specific morphological information for all Orders. The work is an invaluable reference for students and researchers working in all facets of biology and is a must for evolutionary biologists. A detailed understanding of morphology is essential in unraveling phylogenetic relationships and developing complex evolutionary scenarios. Increasingly researchers in phylogenomics are re/turning to morphological data to support their findings, while the development of new cutting-edge technologies has further increased interest in this growing field. This definitive handbook provides an in-depth treatment of insect morphology. The first part presents an up-to-date overview of insect morphology with detailed drawings, brilliant scanning electron micrographs and 3-D reconstructions as interactive PDFs. This is complemented by a chapter on innovative morphological techniques (e.g., μ-computer tomography, 3-D modeling) and a comprehensive morphological glossary. The second part treats the state of the art in insect systematics and includes taxon-specific morphological information for all orders. Systematics are treated formally, with for example the arguments for relationships (“apomorphies”) always listed explicitly. The work is a useful reference for students and researchers working in different fields of biology and a must for those dealing with insects from an evolutionary perspective.
Book Synopsis Computational Phylogenetics by : Tandy Warnow
Download or read book Computational Phylogenetics written by Tandy Warnow and published by Cambridge University Press. This book was released on 2018 with total page 399 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book presents the foundations of phylogeny estimation and technical material enabling researchers to develop improved computational methods.
Book Synopsis Sequence — Evolution — Function by : Eugene V. Koonin
Download or read book Sequence — Evolution — Function written by Eugene V. Koonin and published by Springer Science & Business Media. This book was released on 2013-06-29 with total page 482 pages. Available in PDF, EPUB and Kindle. Book excerpt: Sequence - Evolution - Function is an introduction to the computational approaches that play a critical role in the emerging new branch of biology known as functional genomics. The book provides the reader with an understanding of the principles and approaches of functional genomics and of the potential and limitations of computational and experimental approaches to genome analysis. Sequence - Evolution - Function should help bridge the "digital divide" between biologists and computer scientists, allowing biologists to better grasp the peculiarities of the emerging field of Genome Biology and to learn how to benefit from the enormous amount of sequence data available in the public databases. The book is non-technical with respect to the computer methods for genome analysis and discusses these methods from the user's viewpoint, without addressing mathematical and algorithmic details. Prior practical familiarity with the basic methods for sequence analysis is a major advantage, but a reader without such experience will be able to use the book as an introduction to these methods. This book is perfect for introductory level courses in computational methods for comparative and functional genomics.
Book Synopsis Bayesian Phylogenetics by : Ming-Hui Chen
Download or read book Bayesian Phylogenetics written by Ming-Hui Chen and published by CRC Press. This book was released on 2014-05-27 with total page 398 pages. Available in PDF, EPUB and Kindle. Book excerpt: Offering a rich diversity of models, Bayesian phylogenetics allows evolutionary biologists, systematists, ecologists, and epidemiologists to obtain answers to very detailed phylogenetic questions. Suitable for graduate-level researchers in statistics and biology, Bayesian Phylogenetics: Methods, Algorithms, and Applications presents a snapshot of current trends in Bayesian phylogenetic research. Encouraging interdisciplinary research, this book introduces state-of-the-art phylogenetics to the Bayesian statistical community and, likewise, presents state-of-the-art Bayesian statistics to the phylogenetics community. The book emphasizes model selection, reflecting recent interest in accurately estimating marginal likelihoods. It also discusses new approaches to improve mixing in Bayesian phylogenetic analyses in which the tree topology varies. In addition, the book covers divergence time estimation, biologically realistic models, and the burgeoning interface between phylogenetics and population genetics.
Book Synopsis Atlas of Mammalian Chromosomes by : Stephen J. O'Brien
Download or read book Atlas of Mammalian Chromosomes written by Stephen J. O'Brien and published by John Wiley & Sons. This book was released on 2020-04-02 with total page 1012 pages. Available in PDF, EPUB and Kindle. Book excerpt: THE UPDATED NEW EDITION OF THE POPULAR COLLECTION OF HIGH-RESOLUTION CHROMOSOME PHOTOGRAPHS FOR GENETICISTS, MAMMOLOGISTS, AND BIOLOGISTS INTERESTED IN COMPARATIVE GENOMICS, SYSTEMATICS, AND CHROMOSOME STRUCTURE Filled with a visually exquisite collection of the banded metaphase chromosome karyotypes from some 1,000 species of mammals, the Atlas of Mammalian Chromosomes offers an unabridged compendium of the state of this genomic art form. The Atlas??contains the best karyotype produced, the common and Latin name of the species, the published citation, and identifies the contributing authors. Nearly all karyotypes are G-banded, revealing the chromosomal bar codes of homologous segments among related species. The Atlas brings together information from a range of cytogenetic literature and features high-quality karyotype images for nearly every mammal studied to date. When the Atlas was first published, only three mammals were sequenced. Today, that number is over 300. Now in its second edition, this book contains extensive revisions and major additions such as new karyotypes that employ G- and C- banding to represent euchromatin and heterochromatin genome composition, new phylogenetic trees for each order, homology segment chromosome information on published aligned chromosome painting. Summaries of the painting data for some species indicate conserved homology segments among compared species. An invaluable resource for today's comparative genomics era, this comprehensive collection of high-resolution chromosome photographs: Assembles information previously scattered throughout the cytogenetics literature in one comprehensive volume Provides chromosome information and illustrations for the karyotypes of 300 new species Addresses the mandate of the Human Genome Project to annotate the genomes of other organisms Serves as a basis for chromosome-level genome assemblies Offers a detailed summation of three decades of ZooFish (chromosome painting) Presents high-resolution photos of karyotypes that represent more than 1,000 mammal species Written for geneticists, mammalogists, and biologists, the Atlas of Mammalian Chromosomes offers a step forward for an understanding of species formation, of genome organization, and of DNA script for natural selection.
