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

Chapter 1 ¿ Comparative Genomics of Viruses

Thomas Rattei

Chapter 2 ¿ Current Techniques and Approaches for Metagenomic Exploration of Phage Diversity

Simon Roux and Mark Borodovsky

Chapter 3 ¿ Direct RNA Sequencing for Complete Viral Genomes

Sebastian Krautwurst, Ronald Dijkman, Volker Thiel,

Andi Krumbholz, and Manja Marz

Chapter 4 ¿ Computational Methods for Viral Quasispecies Assembly

Kim Philipp Jablonski and Niko Beerenwinkel

Chapter 5 ¿ Functional RNA Structures in the 3¿ UTR of Mosquito-Borne Flaviviruses

Michael T. Wolfinger, Roman Ochsenreiter, and

Ivo L. Hofacker

vi ¿ Contents

Chapter 6 ¿ Structural Bioinformatics of Influenza Virus RNA Genomes

Alexander P. Gultyaev, René C.L. Olsthoorn,

Monique I. Spronken, and Mathilde Richard

Chapter 7

¿ 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

Chapter 8 ¿ 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

Chapter 9 ¿ Virus-Host Transcriptomics

Caroline C. Friedel

Chapter 10 ¿ Sequence Classification with Machine Learning at the Example of Viral Host Prediction

Florian Mock and Manja Marz

Chapter 11 ¿ Master Regulators of Host Response to SARS-CoV-2 as Promising Targets for Drug Repurposing

Manasa KP , Kamilya Altynbekova, and Alexander Kel

Chapter 12 ¿ The Potential of Computational Genomics in the Design of Oncolytic Viruses

Henni Zommer and Tamir Tuller

Chapter 13 ¿ Sharing Knowledge in Virology

Edouard De Castro, Chantal Hulo, Patrick Masson, and

Philippe Le Mercier