2026
Marrec L, Lehtinen S (2026). Cluster dispersal shapes microbial diversity during community assembly. PLOS Computational Biology 22(2): e1013918.
2025
Matthews AC, Lehtinen S, Dimitriu T (2025). Plasmid streamlining drives the extinction of antibiotic resistance plasmids under selection for horizontal transmission. PLoS Biology 23(12): e3003564.
Krishna A, Tonkin-Hill G, Morel-Journel T, Bentley S, Turner P, et al. (2025). Quantifying the effects of antibiotic resistance and within-host competition on strain fitness in Streptococcus pneumoniae. PLoS Biology 23(8): e3003300.
Guillemet M, Lehtinen S (2025). Emergent epistasis mediates the role of negative frequency-dependent selection in bacterial strain structure. bioRxiv.
Emons M, Blanquart F, Lehtinen S (2025). The evolution of antibiotic resistance in Europe, 1998–2019. PLoS Pathogens 21(4): e1012945.
Morel-Journel T, Lehtinen S, Cotto O, Amia R, Dion S, Figueroa C, et al. (2025). Residence-colonization trade-off and niche differentiation enable coexistence of Escherichia coli phylogroups in healthy humans. The ISME Journal 19(1): wraf089.
2022
Lehtinen S, Croucher NJ, Blanquart F, Fraser C (2022). Epidemiological dynamics of bacteriocin competition and antibiotic resistance. Proceedings of the Royal Society B 289(1984).
Ashcroft P, Lehtinen S, Bonhoeffer S (2022). Test-trace-isolate-quarantine (TTIQ) intervention strategies after symptomatic COVID-19 case identification. PLoS ONE 17(2): e0263597.
Igler C, Huisman JS, Siedentop B, Bonhoeffer S, Lehtinen S (2022). Plasmid co-infection: linking biological mechanisms to ecological and evolutionary dynamics. Philosophical Transactions of the Royal Society B.
2021
Banholzer N, Van Weenen E, Lison A, Cenedese A, Seeliger A, et al. (2021). Estimating the effects of non-pharmaceutical interventions on the number of new infections with COVID-19 during the first epidemic wave. PLoS ONE 16(6): e0252827.
Lehtinen S, Huisman JS, Bonhoeffer S (2021). Evolutionary mechanisms that determine which bacterial genes are carried on plasmids. Evolution Letters 5(3): 290–301.
Ashcroft P, Lehtinen S, Angst DC, Low N, Bonhoeffer S (2021). Quantifying the impact of quarantine duration on COVID-19 transmission. eLife 10: e63704.
Lehtinen S, Ashcroft P, Bonhoeffer S (2021). On the relationship between serial interval, infectiousness profile and generation time. Journal of the Royal Society Interface 18(174).
2020
Ashcroft P, Huisman JS, Lehtinen S, Bouman JA, Althaus CL, Regoes RR, et al. (2020). COVID-19 infectivity profile correction. Swiss Medical Weekly 150.
Jacopin E, Lehtinen S, Débarre F, Blanquart F (2020). Factors favouring the evolution of multidrug resistance in bacteria. Journal of the Royal Society Interface 17(168).
Lehtinen S, Chewapreecha C, Lees J, Hanage WP, Lipsitch M, et al. (2020). Horizontal gene transfer rate is not the primary determinant of observed antibiotic resistance frequencies in Streptococcus pneumoniae. Science Advances 6(21): eaaz6137.
2019
Knight GM, Davies NG, Colijn C, Coll F, Donker T, Gifford DR, Glover RE, et al. (2019). Mathematical modelling for antibiotic resistance control policy: do we know enough? BMC Infectious Diseases 19:1011.
Lehtinen S, Blanquart F, Lipsitch M, Fraser C (2019). On the evolutionary ecology of multidrug resistance in bacteria. PLoS Pathogens 15(5): e1007763.
Lehtinen S (2019). Co-colonisation and coexistence. Nature Ecology & Evolution 3(3): 334–335.
2018
Blanquart F, Lehtinen S, Lipsitch M, Fraser C (2018). The evolution of antibiotic resistance in a structured host population. Journal of the Royal Society Interface 15(143).
2017
Blanquart F, Lehtinen S, Fraser C (2017). An evolutionary model to predict the frequency of antibiotic resistance under seasonal antibiotic use, and an application to Streptococcus pneumoniae. Proceedings of the Royal Society B 284: 20170679.
Lehtinen S, Blanquart F, Croucher NJ, Turner P, Lipsitch M, Fraser C (2017). Evolution of antibiotic resistance is linked to any genetic mechanism affecting bacterial duration of carriage. Proceedings of the National Academy of Sciences 114(5): 1075–1080.
2016
Lam SD, Dawson NL, Das S, Sillitoe I, Ashford P, Lee D, Lehtinen S, et al. (2016). Gene3D: expanding the utility of domain assignments. Nucleic Acids Research 44(D1): D404–D409.
2015
Lehtinen S, Bähler J, Orengo C (2015). Co-expression network models suggest that stress increases tolerance to mutations. Scientific Reports 5:16726.
Lehtinen SK (2015). Gene and Protein Networks in Understanding Cellular Function. University College London.
Lehtinen S, Lees J, Bähler J, Shawe-Taylor J, Orengo C (2015). Gene function prediction from functional association networks using kernel partial least squares regression. PLoS ONE 10(8): e0134668.
Sillitoe I, Lewis TE, Cuff A, Das S, Ashford P, Dawson NL, Furnham N, et al. (2015). CATH: comprehensive structural and functional annotations for genome sequences. Nucleic Acids Research 43(D1): D376–D381.
2013
Lehtinen S, Marsellach FX, Codlin S, Schmidt A, Clément-Ziza M, Beyer A, et al. (2013). Stress induces remodelling of yeast interaction and co-expression networks. Molecular BioSystems 9(7): 1697–1707.