Skip to main content
SpringerLink
Account
Book cover

Evolutionary Genomics

Statistical and Computational Methods

  • Book
  • Open Access
  • © 2019

You have full access to this open access Book

Download book PDF
Download book EPUB

Overview

Editors:
  1. Maria Anisimova

    1. Institute of Applied Simulations, School of Life Sciences and Facility Management, Zurich University of Applied Sciences (ZHAW), Wädenswil, Switzerland

    View editor publications

    You can also search for this editor in PubMed   Google Scholar

  • Includes cutting-edge techniques
  • Provides step-by-step detail essential for reproducible results
  • Contains key implementation advice from the experts

Part of the book series: Methods in Molecular Biology (MIMB, volume 1910)

Buy print copy

Hardcover Book USD 59.99
Price excludes VAT (USA)
  • Durable hardcover edition
  • Dispatched in 3 to 5 business days
  • Free shipping worldwide - see info

Tax calculation will be finalised at checkout

Table of contents (25 protocols)

  1. Front Matter

    Pages i-xvii
    Download chapter PDF

  2. Introduction: Bioinformatician’s Primers

    1. Front Matter

      Pages 1-1
      Download chapter PDF

    2. Introduction to Genome Biology and Diversity

      • Noor Youssef, Aidan Budd, Joseph P. Bielawski
      Pages 3-31Open Access
      Download chapter PDF

    3. Probability, Statistics, and Computational Science

      • Niko Beerenwinkel, Juliane Siebourg
      Pages 33-70Open Access
      Download chapter PDF

    4. A Not-So-Long Introduction to Computational Molecular Evolution

      • Stéphane Aris-Brosou, Nicolas Rodrigue
      Pages 71-117Open Access
      Download chapter PDF

  3. Genomic Alignment and Homology Inference

    1. Front Matter

      Pages 119-119
      Download chapter PDF

    2. Whole-Genome Alignment

      • Colin N. Dewey
      Pages 121-147Open Access
      Download chapter PDF

    3. Inferring Orthology and Paralogy

      • Adrian M. Altenhoff, Natasha M. Glover, Christophe Dessimoz
      Pages 149-175Open Access
      Download chapter PDF

    4. Transposable Elements: Classification, Identification, and Their Use As a Tool For Comparative Genomics

      • Wojciech Makałowski, Valer Gotea, Amit Pande, Izabela Makałowska
      Pages 177-207Open Access
      Download chapter PDF

  4. Phylogenomics and Genome Evolution

    1. Front Matter

      Pages 209-209
      Download chapter PDF

    2. Modern Phylogenomics: Building Phylogenetic Trees Using the Multispecies Coalescent Model

      • Liang Liu, Christian Anderson, Dennis Pearl, Scott V. Edwards
      Pages 211-239Open Access
      Download chapter PDF

    3. Genome-Wide Comparative Analysis of Phylogenetic Trees: The Prokaryotic Forest of Life

      • Pere Puigbò, Yuri I. Wolf, Eugene V. Koonin
      Pages 241-269Open Access
      Download chapter PDF

    4. The Methodology Behind Network Thinking: Graphs to Analyze Microbial Complexity and Evolution

      • Andrew K. Watson, Romain Lannes, Jananan S. Pathmanathan, Raphaël Méheust, Slim Karkar, Philippe Colson et al.
      Pages 271-308Open Access
      Download chapter PDF

    5. Bayesian Molecular Clock Dating Using Genome-Scale Datasets

      • Mario dos Reis, Ziheng Yang
      Pages 309-330Open Access
      Download chapter PDF

    6. Genome Evolution in Outcrossing vs. Selfing vs. Asexual Species

      • Sylvain Glémin, Clémentine M. François, Nicolas Galtier
      Pages 331-369Open Access
      Download chapter PDF

  5. Natural Selection and Innovation in Genomic Sequences

    1. Front Matter

      Pages 371-371
      Download chapter PDF

    2. Selection Acting on Genomes

      • Carolin Kosiol, Maria Anisimova
      Pages 373-397Open Access
      Download chapter PDF

    3. Looking for Darwin in Genomic Sequences: Validity and Success Depends on the Relationship Between Model and Data

      • Christopher T. Jones, Edward Susko, Joseph P. Bielawski
      Pages 399-426Open Access
      Download chapter PDF

    4. Evolution of Viral Genomes: Interplay Between Selection, Recombination, and Other Forces

      • Stephanie J. Spielman, Steven Weaver, Stephen D. Shank, Brittany Rife Magalis, Michael Li, Sergei L. Kosakovsky Pond
      Pages 427-468Open Access
      Download chapter PDF

    5. Evolution of Protein Domain Architectures

      • Sofia K. Forslund, Mateusz Kaduk, Erik L. L. Sonnhammer
      Pages 469-504Open Access
      Download chapter PDF
Back to top

Keywords

About this book

This open access book addresses the challenge of analyzing and understanding the evolutionary dynamics of complex biological systems at the genomic level, and elaborates on some promising strategies that would bring us closer to uncovering of the vital relationships between genotype and phenotype. After a few educational primers, the book continues with sections on sequence homology and alignment, phylogenetic methods to study genome evolution, methodologies for evaluating selective pressures on genomic sequences as well as genomic evolution in light of protein domain architecture and transposable elements, population genomics and other omics, and discussions of current bottlenecks in handling and analyzing genomic data. Written for the highly successful Methods in Molecular Biology series, chapters include the kind of detail and expert implementation advice that lead to the best results. 

Authoritative and comprehensive, Evolutionary Genomics: Statistical and Computational Methods, Second Edition aims to serve both novices in biology with strong statistics and computational skills, and molecular biologists with a good grasp of standard mathematical concepts, in moving this important field of study forward.

Editors and Affiliations

  • Institute of Applied Simulations, School of Life Sciences and Facility Management, Zurich University of Applied Sciences (ZHAW), Wädenswil, Switzerland

    Maria Anisimova

Bibliographic Information

  • Book Title: Evolutionary Genomics

  • Book Subtitle: Statistical and Computational Methods

  • Editors: Maria Anisimova

  • Series Title: Methods in Molecular Biology

  • DOI: https://doi.org/10.1007/978-1-4939-9074-0

  • Publisher: Humana New York, NY

  • eBook Packages: Springer Protocols

  • Copyright Information: The Editor(s) (if applicable) and The Author(s) 2019

  • Hardcover ISBN: 978-1-4939-9073-3Published: 06 July 2019

  • eBook ISBN: 978-1-4939-9074-0Published: 05 July 2019

  • Series ISSN: 1064-3745

  • Series E-ISSN: 1940-6029

  • Edition Number: 2

  • Number of Pages: XVII, 780

  • Number of Illustrations: 79 b/w illustrations, 110 illustrations in colour

  • Topics: Bioinformatics, Genetics and Genomics, Evolutionary Biology

Publish with us

Policies and ethics

Back to top

Search

Navigation