Pathogens have presented a major challenge to individuals and populations of living organisms, probably as long as there has been life on earth. They are a prime object of study for at least three reasons: (1) Understanding the way of pathogens affords the basis for preventing and treating the diseases they cause. (2) The interactions of pathogens with their hosts afford valuable insights into the working of the hosts’ cells, in general, and of the host’s immune system, in particular. (3) The co-evolution of pathogens and their hosts allows for transferring knowledge across the two interacting species and affords valuable insights into how evolution works, in general. In the past decade computational biology has started to contribute to the understanding of host-pathogen interaction in at least three ways which are summarized in the subsequent sections of this chapter.
KeywordsViral Variant Human Leucocyte Antigen Human Immune System Viral Evolution Epitope Prediction
- The World Health Organization Global Influenza Program Surveillance Network (2005) Evolution of H5N1 avian influenza viruses in Asia. Emerg Infect Dis 11: 1515–1521Google Scholar
- Janeway C (2005) Immunobiology: the immune system in health and disease. Garland Science, New YorkGoogle Scholar
- Roomp K, Beerenwinkel N, Sing T, Schülter E, Büch J, Sierra-Aragon S, Däumer M, Hoffmann D, Kaiser R, Lengauer T, Selbig J (2006) Arevir: A secure platfrom for designing personalized antiretroviral therapies against HIV. In: Leser U, Naumann F, Eckman B (eds) Third International Workshop on Data Integration in the Life Sciences (DILS 2006). Springer Verlag, Hinxton, U.K. 4075, pp 185–194Google Scholar
- Sing T, Svicher V, Beerenwinkel N, Ceccherini-Silberstein F, Däumer M, Kaiser R, Walter H, Korn K, Hoffmann D, Oette M, Rockstroh J, Fätkenheuer G, Perno C-F, Lengauer T (2005) Characterization of novel HIV drug resistance mutations using clustering, multidimensional scaling and SVM-Based feature ranking. In: Alipio MJ, Torgo L, Bradzil PB, Camacho R, Gama J (eds) Knowledge discovery in databases: PKDD 2005. Lecture notes in computer science No. 3721, Springer Verlag, Berlin/Heidelberg, pp 285–296CrossRefGoogle Scholar
- Wang M, Lamberth K, Harndahl M, Roder G, Stryhn A, Larsen MV, Nielsen M, Lundegaard C, Tang ST, Dziegiel MH, Rosenkvist J, Pedersen AE, Buus S, Claesson MH, Lund O (2007) CTL epitopes for influenza A including the H5N1 bird flu; genome-, pathogen-, and HLA-wide screening. Vaccine 25: 2823–2831PubMedCrossRefGoogle Scholar