- Ascensao JA, Desai M. Experimental evolution in an era of molecular tools for manipulating genotypes and phenotypes. Nature Reviews Genetics (2025). DOI
- Ascensao JA, Lok K, Hallatschek O. Asynchronous abundance fluctuations can drive giant genotype frequency fluctuations. Nature Ecology and Evolution (2024). DOI | PDF
- Ascensao JA, Denk J, Lok K, Yu Q, Wetmore KM, Hallatschek O. Rediversification following ecotype isolation reveals hidden adaptive potential. Current Biology (2024). DOI | PDF
- See related dispatch article by W. Shoemaker
- Yu Q, Ascensao JA*, Okada T*, COG-UK consortium, Boyd O, Volz E, Hallatschek O. Lineage frequency time series reveal elevated levels of genetic drift in SARS-CoV-2 transmission in England. PLOS Pathogens (2024). DOI | PDF
- Ascensao JA, Wetmore KM, Good BH, Arkin AP, Hallatschek O. Quantifying the local adaptive landscape of a nascent bacterial community. Nature Communications (2023). DOI | PDF
- Ascensao JA*, Datta P*, Hancioglu B*, Sontag E*, Gennaro ML, Igoshin OA. Non-monotonic response to monotonic stimulus: regulation of glyoxylate shunt gene-expression dynamics in M. tuberculosis. PLOS Computational Biology (2016). DOI | PDF
- Ascensao JA*, Dolan ME*, Hill DP, Blake JA. Methodology for the inference of gene function from phenotype data. BMC Bioinformatics (2014). DOI | PDF
*equal contributions