Faster adaptation in smaller populations: Counterintuitive evolution of HIV during childhood infection. by Raghwani, J, Bhatt, S, Pybus, O

Selection on non-antigenic gene segments of seasonal influenza A virus and its impact on adaptive evolution by Raghwani, J, Thompson, R, Koelle, K

Link between the numbers of particles and variants founding new HIV-1 infections depends on the timing of transmission by Thompson, R, Wymant, C, Spriggs, R, Raghwani, J, Fraser, C, Lythgoe, K

Purifying selection determines the short-term time dependency of evolutionary rates in SARS-CoV-2 and pH1N1 influenza by Ghafari, M, du Plessis, L, Raghwani, J, Bhatt, S, Xu, B, Pybus, OG, Katzourakis, A

High resolution evolutionary analysis of within-host hepatitis C virus infection by Raghwani, J, Wu, C-H, Ho, CKY, Molenkamp, R, Schinkel, J, Pybus, O, Lythgoe, K

A molecular-level account of the antigenic hantaviral surface by Li, S, Rissanen, I, Zeltina, A, Hepojoki, H, Raghwani, J, Harlos, K, Pybus, O, Huiskonen, J, Bowden, T

High-resolution evolutionary analysis of within-host hepatitis C virus infection by Raghwani, J, Wu, C, Ho, C, De Jong, M, Molenkamp, R, Schinkel, J, Pybus, O, Lythgoe, K

Structure of the Lassa virus glycan shield provides a model for immunological resistance by Watanabe, Y, Raghwani, j, Allen, J, Seabright, G, Li, S, Moser, F, Huiskonen, J, Strecker, T, Bowden, T, Crispin, M

Exceptional Heterogeneity in Viral Evolutionary Dynamics Characterises Chronic Hepatitis C Virus Infection. by Raghwani, J, Rose, R, Sheridan, I, Lemey, P, Suchard, M, Santantonio, T, Farci, P, Klenerman, P, Pybus, O

Coalescent inference using serially sampled, high-throughput sequencing data from intra-host HIV infection. by Dialdestoro, K, Sibbesen, J, Maretty, L, Raghwani, J, Gall, A, Kellam, P, Pybus, O, Hein, J, Jenkins, P

A de novo approach to inferring within-host fitness effects during untreated HIV-1 infection by Illingworth, CJR, Raghwani, J, Serwadda, D, Sewankambo, NK, Robb, ML, Eller, MA, Redd, AR, Quinn, TC, Lythgoe, KA

Where do all the subtypes go? Temporal dynamics of H8-H12 influenza A viruses in waterfowl. by Wille, M, Latorre-Margalef, N, Tolf, C, Halpin, R, Wentworth, D, Fouchier, RAM, Raghwani, J, Pybus, OG, Olsen, B, Waldenström, J

Seasonal dynamics of the wild rodent faecal virome by Raghwani, J, François, S, Faust, CL, Nguyen, D, Marsh, K, Raulo, A, Hill, SC, Parag, KV, Knowles, SCL, Simmonds, P, Pybus, OG

Endemic dengue associated with the co-circulation of multiple viral lineages and localized density-dependent transmission. by Raghwani, J, Rambaut, A, Holmes, E, Hang, V, Hien, T, Farrar, J, Wills, B, Lennon, N, Birren, B, Henn, MR, Simmons, C

Origin and evolution of the unique hepatitis C virus circulating recombinant form 2k/1b by Raghwani, J, Thomas, X, Koekkoek, S, Schinkel, J, Molenkamp, R, van de Laar, T, Takebe, Y, Tanaka, Y, Mizokami, M, Rambaut, A, Pybus, O

Establishment and cryptic transmission of Zika virus in Brazil and the Americas by Faria, N, Quick, J, Morales, I, Thézé, J, Kraemer, M, Hill, S, Wu, C, Raghwani, J, du Plessis, L, Pybus, O, al., E

Origin and evolution of the unique hepatitis C virus circulating recombinant form 2k/1b. by Raghwani, J, Thomas, X, Koekkoek, S, Schinkel, J, Molenkamp, R, van de Laar, T, Takebe, Y, Tanaka, Y, Mizokami, M, Rambaut, A, Pybus, O

Origins and evolutionary genomics of the 2009 swine-origin H1N1 influenza A epidemic by Smith, G, Vijaykrishna, D, Bahl, J, Lycett, S, Worobey, M, Pybus, O, Ma, S, Cheung, C, Raghwani, J, Bhatt, S, Peiris, J, Guan, Y, Rambaut, A

Origins and evolutionary genomics of the 2009 swine-origin H1N1 influenza A epidemic. by Smith, G, Vijaykrishna, D, Bahl, J, Lycett, S, Worobey, M, Pybus, O, Ma, S, Cheung, C, Raghwani, J, Bhatt, S, Peiris, J, Guan, Y, Rambaut, A

Vulnerabilities in coronavirus glycan shields despite extensive glycosylation by Watanabe, Y, Berndsen, ZT, Raghwani, J, Seabright, GE, Allen, JD, Pybus, OG, McLellan, JS, Wilson, IA, Bowden, TA, Ward, AB, Crispin, M