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Saraiva, BM, Krippahl L, Filipe SR, Henriques R, Pinho MG.  2021.  eHooke: a tool for automated image analysis of spherical bacteria based on cell cycle progression. Biological Imaging. 1:e3.
Sherratt, DJ, Soballe B, Barre F-X, Filipe SR, Massey T, Lau I, Yates J.  2004.  Recombination and chromosome segregation. Phil. Trans. R. Soc. Lond. B. 359:61-69.
Szymczak, P, Rau MH, Monteiro JM, Pinho MG, Filipe SR, Vogensen FK, Zeidan AA, Janzen T.  2019.  A comparative genomics approach for identifying host-range determinants in Streptococcus thermophilus bacteriophages. Scientific Reports. 9(1):7991.
Szymczak, P, Filipe SR, Covas G, Vogensen FK, Neves AR, Janzen T.  2018.  Cell wall glycans mediate recognition of the dairy bacterium Streptococcus thermophilus by bacteriophages. Applied and Environmental Microbiology. 84(23):e01847-18.