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Although much is understood about antigen switching at the molecular level, little is known about the cross-scale links between these molecular processes and the larger-scale within and between host population dynamics that they must ultimately drive. Inspired by the antigenic variation system of African trypanosomes, we apply modelling approaches to our expanding understanding of the organization and expression of antigen repertoires, and explore links across these scales. We predict how pathogen population processes are determined by underlying molecular genetics and infer resulting selective pressures on important emergent repertoire traits.<\/jats:p>","DOI":"10.1098\/rspb.2012.2129","type":"journal-article","created":{"date-parts":[[2013,1,2]],"date-time":"2013-01-02T06:04:28Z","timestamp":1357106668000},"update-policy":"https:\/\/doi.org\/10.1098\/crossmark-policy","source":"Crossref","is-referenced-by-count":6,"title":["Linking the antigen archive structure to pathogen fitness in African trypanosomes"],"prefix":"10.1098","volume":"280","author":[{"given":"Erida","family":"Gjini","sequence":"first","affiliation":[{"name":"School of Mathematics and Statistics, College of Science and Engineering, Institute of Infection, Immunity and Inflammation, University of Glasgow, Glasgow, UK 1"},{"name":"The Boyd Orr Centre for Population and Ecosystem Health, Institute of Infection, Immunity and Inflammation, University of Glasgow, Glasgow, UK 3"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Daniel T.","family":"Haydon","sequence":"additional","affiliation":[{"name":"Institute of Biodiversity, Animal Health and Comparative Medicine, College of Medical, Veterinary and Life Sciences, Institute of Infection, Immunity and Inflammation, University of Glasgow, Glasgow, UK 2"},{"name":"The Boyd Orr Centre for Population and Ecosystem Health, Institute of Infection, Immunity and Inflammation, University of Glasgow, Glasgow, UK 3"},{"name":"Wellcome Trust Centre for Molecular Parasitology, Institute of Infection, Immunity and Inflammation, University of Glasgow, Glasgow, UK 4"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"J. 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