Eight challenges in phylodynamic inference.
The field of phylodynamics, which attempts to enhance our understanding of infectious disease dynamics using pathogen phylogenies, has made great strides in the past decade. Basic epidemiological and evolutionary models are now well characterized with inferential frameworks in place. However, significant challenges remain in extending phylodynamic inference to more complex systems. These challenges include accounting for evolutionary complexities such as changing mutation rates, selection, reassortment, and recombination, as well as epidemiological complexities such as stochastic population dynamics, host population structure, and different patterns at the within-host and between-host scales. An additional challenge exists in making efficient inferences from an ever increasing corpus of sequence data.
['Frost|Simon D W|SD|', 'Pybus|Oliver G|OG|', 'Gog|Julia R|JR|', 'Viboud|Cecile|C|', 'Bonhoeffer|Sebastian|S|', 'Bedford|Trevor|T|']
D005075:Biological Evolution D003141:Communicable Diseases D014644:Genetic Variation D054884:Host-Pathogen Interactions D006801:Humans D015233:Models, Statistical D010802:Phylogeny D011157:Population Dynamics D011995:Recombination, Genetic D012641:Selection, Genetic D013269:Stochastic Processes
Phylodynamics Selection Recombination Coalescent models