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During an epidemic, scientists use viral genome data to infer a shared evolutionary history and connect this history to geographic spread. We propose a model that directly relates a pathogen\u2019s evolution to its spatial contagion dynamics\u2014effectively combining the two epidemiological paradigms of phylogenetic inference and self-exciting process modeling\u2014and apply this phylogenetic Hawkes process to a Bayesian analysis of 23\u200a421 viral cases from the 2014 to 2016 Ebola outbreak in West Africa. The proposed model is able to detect individual viruses with significantly elevated rates of spatiotemporal propagation for a subset of 1610 samples that provide genome data. Finally, to facilitate model application in big data settings, we develop massively parallel implementations for the gradient and Hessian of the log-likelihood and apply our high-performance computing framework within an adaptively pre-conditioned Hamiltonian Monte Carlo routine.<\/jats:p><\/jats:sec><jats:sec><jats:title>Supplementary information<\/jats:title><jats:p>Supplementary data are available at Bioinformatics online.<\/jats:p><\/jats:sec>","DOI":"10.1093\/bioinformatics\/btac027","type":"journal-article","created":{"date-parts":[[2022,1,13]],"date-time":"2022-01-13T04:24:54Z","timestamp":1642047894000},"page":"1846-1856","source":"Crossref","is-referenced-by-count":7,"title":["From viral evolution to spatial contagion: a biologically modulated Hawkes model"],"prefix":"10.1093","volume":"38","author":[{"given":"Andrew J","family":"Holbrook","sequence":"first","affiliation":[{"name":"Department of Biostatistics, University of California , Los Angeles, CA 90095, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Xiang","family":"Ji","sequence":"additional","affiliation":[{"name":"Department of Mathematics, Tulane University , New Orleans, LA 70118, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-9818-479X","authenticated-orcid":false,"given":"Marc A","family":"Suchard","sequence":"additional","affiliation":[{"name":"Department of Biostatistics, University of California , Los Angeles, CA 90095, USA"},{"name":"Department of Biomathematics"},{"name":"Department of Human Genetics, University of California , Los Angeles, CA 90095, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"286","published-online":{"date-parts":[[2022,1,18]]},"reference":[{"key":"2023020201174634100_btac027-B1","doi-asserted-by":"crossref","first-page":"1550005","DOI":"10.1142\/S2382626615500057","article-title":"Hawkes processes in finance","volume":"1","author":"Bacry","year":"2015","journal-title":"Market Microstruct. 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