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.


  • 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.

chapter Chapter 1|15 pages

Comparative Genomics of Viruses

ByThomas Rattei

chapter Chapter 2|18 pages

Current Techniques and Approaches for Metagenomic Exploration of Phage Diversity

BySimon Roux, Mark Borodovsky

chapter Chapter 3|16 pages

Direct RNA Sequencing for Complete Viral Genomes

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

chapter Chapter 4|14 pages

Computational Methods for Viral Quasispecies Assembly

ByKim Philipp Jablonski, Niko Beerenwinkel

chapter Chapter 5|36 pages

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

ByMichael T. Wolfinger, Roman Ochsenreiter, Ivo L. Hofacker

chapter Chapter 6|20 pages

Structural Bioinformatics of Influenza Virus RNA Genomes

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

chapter Chapter 7|19 pages

Structural Genomics and Interactomics of SARS-COV2

Decoding Basic Building Blocks of the Coronavirus
ByZiyang Gao, Senbao Lu, Oleksandr Narykov, Suhas Srinivasan, Dmitry Korkin

chapter Chapter 8|16 pages

Computational Tools for Discovery of CD8 T cell Epitopes and CTL Immune Escape in Viruses Causing Persistent Infections

ByHadi Karimzadeh, Daniel Habermann, Daniel Hoffmann, Michael Roggendorf

chapter Chapter 9|22 pages

Virus-Host Transcriptomics

ByCaroline C. Friedel

chapter Chapter 10|17 pages

Sequence Classification with Machine Learning at the Example of Viral Host Prediction

ByFlorian Mock, Manja Marz

chapter Chapter 11|47 pages

Master Regulators of Host Response to SARS-CoV-2 as Promising Targets for Drug Repurposing

ByK.P. Manasa, Kamilya Altynbekova, Alexander Kel

chapter Chapter 12|18 pages

The Potential of Computational Genomics in the Design of Oncolytic Viruses

ByHenni Zommer, Tamir Tuller

chapter Chapter 13|11 pages

Sharing Knowledge in Virology

ByEdouard De Castro, Chantal Hulo, Patrick Masson, Philippe Le Mercier