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| [88] | Reyné B, Richard Q, Selinger C, Sofonea MT., Djidjou-Demasse R, Alizon S (2022) Non-Markovian modelling highlights the importance of age structure on Covid-19 epidemiological dynamics. Math. Model. Nat. Phenom.. 17(7): 1-24.
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| [69] | Debernardi A., Jarassier W., Soret C., Mougin C., Alizon S., Bravo I. G., Guenat D., Prétet J. L., Lepiller Q. (2021) Repurposing the Hybrid Capture 2 (HC2) screening test for whole-genome sequencing of human papillomaviruses. Arch Virol. 166: 3421–3425.
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| [67] | Danesh G, Virlogeux V, Ramière C, Charre C, Cotte L, Alizon S (2021) Quantifying transmission dynamics of acute hepatitis C virus infections in a heterogeneous population using sequence data. PLoS Pathog. 17(9): e1009916.
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| [65] | Beneteau T, Elie B, Sofonea MT, Alizon S (2021) Estimating dates of origin and end of COVID-19 epidemics. Peer Community Journal. 1: e70.
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| [30] | Alizon S, Fraser C (2013) Within-host and between-host evolutionary rates across the HIV-1 genome. Retrovirology. 10: 49.
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| [28] | Alizon S (2013) On the limits of interpreting some plastic responses through a cooperator/cheater prism. A comment on Harrison. J Evol Biol. 26(9): 2051-6.
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| [27] | Alizon S (2013) Co-infection and super-infection models in evolutionary epidemiology. Interface Focus. 3: 20130031.
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| [26] | Alizon S (2013) Parasite co-transmission and the evolutionary epidemiology of virulence. Evolution. 67(4): 921-933.
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| [25] | Moslonka-Lefebvre M, Bonhoeffer S, Alizon S (2012) Weighting for sex acts to understand the spread of STI on networks. J theor Biol. 311: 46-53.
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| [24] | Alizon S, Magnus C (2012) Modelling the course of an HIV infection: Insights from ecology and evolution. Viruses. 4(10): 1984-2013.
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| [23] | de Roode JC, de Castillejo CLF, Faits T, Alizon S (2011) Virulence evolution in response to anti-infection resistance: toxic food plants can select for virulent parasites of monarch butterflies. J Evol Biol. 24(4): 712-22.
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| [22] | Day T, Alizon S, Mideo N (2011) Bridging scales in the evolution of infectious disease life histories: theory. Evolution. 65(12): 3448-61.
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| [21] | Alizon S, Michalakis Y (2011) The transmission-virulence trade-off and superinfection: comments to smith. Evolution. 65(12): 3633-8.
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| [20] | Alizon S, Lion S (2011) Within-host parasite cooperation and the evolution of virulence. Proc R Soc Lond B. 278(1725): 3738-3747.
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| [19] | Alizon S, Luciani F, Regoes RR. (2011) Epidemiological and clinical consequences of within-host evolution. Trends Microbiol. 19(1): 24-32.
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| [18] | Abbot P, Abe J, Alcock J, Alizon S, Alpedrinha JAC, Andersson M, Andre JB, van Baalen M, Balloux F, Balshine S, Barton N, Beukeboom LW, Biernaskie JM, Bilde T, Borgia G, Breed M, Brown S, Bshary R, Buckling A, Burley NT, Burton-Chellew MN, Cant MA, Chapuisat M, Charnov EL, Clutton-Brock T, Cockburn A, Cole BJ, Colegrave N, Cosmides L, Couzin ID, Coyne JA, Creel S, Crespi B, Curry RL, Dall SRX, Day T, Dickinson JL, Dugatkin LA, El Mouden C, Emlen ST, Evans J, Ferriere R, Field J, Foitzik S, Foster K, Foster WA, Fox CW, Gadau J, Gandon S, Gardner A, Gardner MG, Getty T, Goodisman MAD, Grafen A, Grosberg R, Grozinger CM, Gouyon PH, Gwynne D, Harvey PH, Hatchwell BJ, Heinze J, Helantera H, Helms KR, Hill K, Jiricny N, Johnstone RA, Kacelnik A, Kiers ET, Kokko H, Komdeur J, Korb J, Kronauer D, Kümmerli R, Lehmann L, Linksvayer TA, Lion S, Lyon B, Marshall JAR, McElreath R, Michalakis Y, Michod RE, Mock D, Monnin T, Montgomerie R, Moore AJ, Mueller UG, Noë R, Okasha S, Pamilo P, Parker GA, Pedersen JS, Pen I, Pfennig D, Queller DC, Rankin DJ, Reece SE, Reeve HK, Reuter M, Roberts G, Robson SKA, Roze D, Rousset F, Rueppell O, Sachs JL, Santorelli L, Schmid-Hempel P, Schwarz MP, Scott-Phillips T, Shellmann-Sherman J, Sherman PW, Shuker DM, Smith J, Spagna JC, Strassmann B, Suarez AV, Sundström L, Taborsky M, Taylor P, Thompson G, Tooby J, Tsutsui ND, Tsuji K, Turillazzi S, Ubeda F, Vargo EL, Voelkl B, Wenseleers T, West SA, West-Eberhard MJ, Westneat DF, Wiernasz DC, Wild G, Wrangham R, Young AJ, Zeh DW, Zeh JA, Zink A (2011) Inclusive fitness theory and eusociality. Nature. 471(7339): E1-4.
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| [17] | Froissart R, Doumayrou J, Vuillaume F, Alizon S, Michalakis Y (2010) The virulence-transmission trade-off in vector-borne plant viruses: a review of (non-)existing studies. Philos. Trans. R. Soc. B. 365(1548): 1907-18.
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| [16] | Alizon S, von Wyl V, Stadler T, Kouyos RD., Yerly S, Hirschel B, Boeni J, Shah C, Klimkait T, Furrer H, Rauch A, Vernazza P, Bernasconi E, Battegay M, Bürgisser P, Telenti A, Guenthard HF., Bonhoeffer S (2010) Phylogenetic approach reveals that virus genotype largely determines HIV set-point viral load. PLoS Pathog. 6(9): e1001123.
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| [15] | Alizon S, Boldin B (2010) Within-host viral evolution in a heterogeneous environment. Insights into the HIV co-receptor switch. J Evol Biol. 23: 2625-2635.
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| [14] | Luciani F, Alizon S (2009) The evolutionary dynamics of a rapidly mutating virus within and between hosts: the case of hepatitis C virus. PLoS Comput Biol. 5(11): e1000565.
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| [13] | Alizon S, Hurford A, Mideo N (2009) Virulence evolution and the trade-off hypothesis: history, current state of affairs and the future. J Evol Biol. 22: 245-259.
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| [12] | Alizon S (2009) The Price equation framework to study disease within-host evolution. J Evol Biol. 22: 1123-1132.
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| [11] | Mideo N, Alizon S, Day T (2008) Linking within- and between-host dynamics in the evolutionary epidemiology of infectious diseases. Trends Ecol Evol. 23(9): 511-517.
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| [10] | Day T, Mideo N, Alizon S (2008) Why is HIV not vector-borne? Evol App. 1: 17-27.
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| [5] | Alizon S, Kucera M, Jansen VA. A. (2008) Competition between cryptic species explains variations in rates of lineage evolution. Proc Natl Acad Sci USA. 105(34): 12382-12386.
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| [4] | Alizon S (2008) Decreased overall virulence in co-infected hosts leads to the persistence of virulent parasites. Am Nat. 172(2): E67-E79.
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| [3] | Alizon S (2008) Transmission-recovery trade-offs to study parasite evolution. Am Nat. 172(3): E113-E121.
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| [2] | Gallet R, Alizon S, Comte PA, Gutierrez A, Depaulis F, Van Baalen M, Michel E, Müller-Graf CD. M. (2007) Predation and disturbance interact to shape prey species diversity. Am Nat. 170: 143-154.
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| [1] | Alizon S, van Baalen M (2005) Emergence of a convex trade-off between transmission and virulence. Am Nat. 165(6): E155-E167.
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