Dr David Jorgensen

Faculty of Medicine, School of Public Health

Research Associate

Contact

Location

Sir Michael Uren HubWhite City Campus

Summary

I work on the transition dynamics of non-polio enteroviruses with Dr Margarita Pons-Salort. My current projects focus on the use of genomic sequence data to inform epidemiological parameter estimates.

My PhD was on polio phylogeography in the Vaccine Epidemiology Research Group. This involved novel estimates and visualisations based on routinely collected wild poliovirus genetic sequences from Paksitan and Afghanistan, the two remaining wild polio endemic countries. During my PhD I also worked on methodological changes to better incorporate spatially and temporally biased sampling data in estimates of viral transmission dynamics and SARS-CoV-2 phylodynamic modelling as part of the Imperial COVID-19 Response Team.

My background is in biology with a masters in epidemiology. I have an interest in spatial epidemiology and mixed effects modelling outside of my current focus on the use of genetic data in epidemiological analysis.

Publications

Journals

Cuomo-Dannenburg G, McCain K, McCabe R, et al.Cuomo-Dannenburg G, McCain K, McCabe R, Unwin HJT, Doohan P, Nash RK, Hicks JT, Charniga K, Geismar C, Lambert B, Nikitin D, Skarp J, Wardle J, Kont M, Bhatia S, Imai N, van Elsland S, Cori A, Morgenstern C close, 2023, Marburg virus disease outbreaks, mathematical models, and disease parameters: a systematic review, Lancet Infectious Diseases, ISSN:1473-3099

Shaw AGG, Mampuela TK, Lofiko EL, et al.Shaw AGG, Mampuela TK, Lofiko EL, Pratt C, Troman C, Bujaki E, O'Toole A, Akello JO, Aziza AA, Lusamaki EK, Makangara JC, Akonga M, Lay Y, Nsunda B, White B, Jorgensen D, Pukuta E, Riziki Y, Rankin KEE, Rambaut A, Ahuka-Mundeke S, Muyembe J-J, Martin J, Grassly NCC, Mbala-Kingebeni P close, 2023, Sensitive poliovirus detection using nested PCR and nanopore sequencing: a prospective validation study, Nature Microbiology, ISSN:2058-5276

Mourier T, Shuaib M, Hala S, et al.Mourier T, Shuaib M, Hala S, Mfarrej S, Alofi F, Naeem R, Alsomali A, Jorgensen D, Subudhi AK, Ben Rached F, Guan Q, Salunke RP, Ooi A, Esau L, Douvropoulou O, Nugmanova R, Perumal S, Zhang H, Rajan I, Al-Omari A, Salih S, Shamsan A, Al Mutair A, Taha J, Alahmadi A, Khotani N, Alhamss A, Mahmoud A, Alquthami K, Dageeg A, Khogeer A, Hashem AM, Moraga P, Volz E, Almontashiri N, Pain A close, 2022, SARS-CoV-2 genomes from Saudi Arabia implicate nucleocapsid mutations in host response and increased viral load, Nature Communications, Vol:13, ISSN:2041-1723

Volz E, Mishra S, Chand M, et al.Volz E, Mishra S, Chand M, Barrett JC, Johnson R, Geidelberg L, Hinsley WR, Laydon DJ, Dabrera G, O'Toole Á, Amato R, Ragonnet-Cronin M, Harrison I, Jackson B, Ariani CV, Boyd O, Loman NJ, McCrone JT, Gonçalves S, Jorgensen D, Myers R, Hill V, Jackson DK, Gaythorpe K, Groves N, Sillitoe J, Kwiatkowski DP, COVID-19 Genomics UK (COG-UK) consortium, Flaxman S, Ratmann O, Bhatt S, Hopkins S, Gandy A, Rambaut A, Ferguson NM close, 2021, Assessing transmissibility of SARS-CoV-2 lineage B.1.1.7 in England, Nature, Vol:593, ISSN:0028-0836, Pages:266-269

Ragonnet-Cronin M, Boyd O, Geidelberg L, et al.Ragonnet-Cronin M, Boyd O, Geidelberg L, Jorgensen D, Nascimento F, Siveroni I, Johnson R, Baguelin M, Cucunuba Z, Jauneikaite E, Mishra S, Watson O, Ferguson N, Cori A, Donnelly C, Volz E close, 2021, Genetic evidence for the association between COVID-19 epidemic severity and timing of non-pharmaceutical interventions, Nature Communications, Vol:12, ISSN:2041-1723, Pages:1-7

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