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1st Edition

Virus Bioinformatics



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ISBN 9780367558604
August 25, 2021 Forthcoming by Chapman and Hall/CRC
320 Pages 55 Color & 3 B/W Illustrations

 
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Book Description

Viruses are the most numerous and deadliest biological entities on the planet, infecting all types of living organisms – from bacteria to human beings. The constantly expanding repertoire of experimental approaches available to study viruses includes both low throughput techniques, such as imaging and 3D structure determination, and modern OMICS technologies, such as genome sequencing, ribosomal profiling, and RNA structure probing. Bioinformatics of viruses faces significant challenges due to their seemingly unlimited diversity, unusual lifestyle, great variety of replication strategies, compact genome organization, and rapid rate of evolution. At the same time, it also has the potential to deliver decisive clues for developing vaccines and medications against dangerous viral outbreaks, such as the recent coronavirus pandemics. Virus Bioinformatics reviews state-of-the-art bioinformatics algorithms and recent advances in data analysis in virology.

Key Features;

  • Contributions from leading international experts in the field.
  • Discusses open questions and urgent needs.
  • Covers a broad spectrum of topics including evolution, structure, and function of viruses, including coronaviruses.

The book will be of great interest to computational biologists wishing to venture into the rapidly advancing field of virus bioinformatics as well as to virologists interested in acquiring basic bioinformatics skills to support their wet lab work.

Table of Contents

Preface

Comparative genomics of viruses          

Thomas Rattei

Current techniques and approaches for metagenomic exploration of phage diversity

Simon Roux, Mark Borodovsky

Direct RNA sequencing for complete viral genomes       

Sebastian Krautwurst,Ronald Dijkman, Volker Thiel, Andi Krumbholz, Manja Marz

 

Computational methods for viral quasispecies assembly 

Kim Philipp Jablonski, Niko Beerenwinkel

 

Functional RNA Structures in the 3’UTR of Mosquito-Borne Flaviviruses           

Michael T. Wolfinger, Roman Ochsenreiter and Ivo L. Hofacker

 

Structural bioinformatics of influenza virus RNA genomes

Alexander P. Gultyaev, René C.L. Olsthoorn, Monique I. Spronken, and Mathilde Richard

 

Structural genomics and interactomics of SARS-COV2: Decoding basic building blocks of the coronavirus

Ziyang Gao, Senbao Lu, Oleksandr Narykov, Suhas Srinivasan, and Dmitry Korkin

 

Computational tools for discovery of CD8 T cell epitopes and CTL immune escape in viruses causing persistent infections    

Hadi Karimzadeh, Daniel Habermann, Daniel Hoffmann and Michael Roggendorf.

 

Virus-host transcriptomics

Caroline C. Friedel

 

Sequence classication with machine learning at the example of viral host prediction        

Florian Mock and Manja Marz

 

Master-regulators of host response to SARS-CoV-2 as promising targets for drug repurposing 

Manasa KP, Kamilya Altynbekova, Alexander Kel

 

The potential of computational genomics in the design of oncolytic viruses            

Henni Zommer and Tamir Tuller

 

Sharing knowledge in Virology 

Edouard De Castro, Chantal Hulo, Patrick Masson and Philippe Le Mercier

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Editor(s)

Biography

Dmitrij Frishman is Professor for Bioinformatics at Munich Technical University (TUM)

Manja Marz is Professor for High-Throughput Sequencing Analysis at Friedrich Schiller University Jena

Reviews

“Virology is progressing under the comfortable simplifications or reductionism and the disturbing recognition of complexity. Viruses are ubiquitous and diverse, and individual viral populations are exceedingly complex and dynamic, both genetically and phenotypically. As intracellular infection events are scrutinized at the single cell level of analysis, we are learning that virus-cell-organism interactions are multifaceted and intricate. Bioinformatics emerges to rescue virology amid a turmoil of new information in need of order. This book, edited by Manja Marz and Dimitrij Frishman, with outstanding contributing authors, will play the role of a lighthouse in a stormy ocean, to guide virologists on possible paths to follow.”
-- Esteban Domingo, Professor of Research at the Spanish National Research Council (CSIC), Madrid, Winter 2021