Exploring the interactions between the human and viral genomes

  • Jacques FellayEmail author
  • Vincent Pedergnana
Part of the following topical collections:
  1. Human genetics of infectious diseases


Over the last decade, genome-wide association studies led to major advances in identifying human genetic variants associated with infectious disease susceptibility. On the pathogen side, comparable methods are now applied to identify disease-modulating pathogen variants. As host and pathogen variants jointly determine disease outcomes, the most recent development has been to explore simultaneously host and pathogen genomes, through so-called genome-to-genome studies. In this review, we provide some background on the development of genome-to-genome analysis and we detail the first wave of studies in this emerging field, which focused on patients chronically infected with HIV and hepatitis C virus. We also discuss the need for novel statistical methods to better tackle the issues of population stratification and multiple testing. Finally, we speculate on future research areas where genome-to-genome analysis may prove to be particularly effective.


Compliance with ethical standards

Conflict of interest

On behalf of all authors, the corresponding author states that there is no conflict of interest.


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Copyright information

© Springer-Verlag GmbH Germany, part of Springer Nature 2019

Authors and Affiliations

  1. 1.School of Life SciencesÉcole Polytechnique Fédérale de LausanneLausanneSwitzerland
  2. 2.Precision Medicine UnitUniversity Hospital and University of LausanneLausanneSwitzerland
  3. 3.Swiss Institute of BioinformaticsLausanneSwitzerland
  4. 4.French National Center for Scientific Research (CNRS), Laboratory MIVEGEC (CNRS, IRD, UM)MontpellierFrance

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