Keira A. Cohen, Abigail L. Manson, Christopher A. Desjardins, Thomas Abeel, Ashlee M. Earl (2019), Deciphering drug resistance in Mycobacterium tuberculosis using whole-genome sequencing: Progress, promise, and challenges, In Genome Medicine p.1-18.

Keira A. Cohen, Abigail L. Manson, Thomas Abeel, Christopher A. Desjardins, Sinead B. Chapman, Sven Hoffner, Bruce W. Birren, Ashlee M. Earl (2019), Extensive global movement of multidrug-resistant M. tuberculosis strains revealed by whole-genome analysis, In Thorax Volume 74 p.882-889.

Arthur Gorter de Vries, Maaike Voskamp, Aafke van Aalst, L.H. Kristensen, Liset Jansen, Alex Salazar, Marcel van den Broek, Nick Brouwers, Thomas Abeel, Jack Pronk, Jean Marc Daran (2019), Laboratory Evolution of a Saccharomyces cerevisiae × S. eubayanus Hybrid Under Simulated Lager-Brewing Conditions, In Frontiers in Genetics Volume 10.

Alex N. Salazar, Thomas Abeel (2018), Approximate, simultaneous comparison of microbial genome architectures via syntenic anchoring of quiver representations, In Bioinformatics Volume 34 p.i732-i742.

Thies Gehrmann, Jordi F. Pelkmans, Robin A. Ohm, Aurin M. Vos, Anton S.M. Sonnenberg, Johan J.P. Baars, Han A.B. Wösten, Marcel J.T. Reinders, Thomas Abeel (2018), Nucleus-specific expression in the multinuclear mushroom-forming fungus Agaricus bisporus reveals different nuclear regulatory programs, In Proceedings of the National Academy of Sciences of the United States of America Volume 115 p.4429-4434.

Eveline T. Diepeveen, Thies Gehrmann, Thomas Abeel, Valérie Pourquié, Liedewij Laan (2018), Patterns of conservation and diversification in the fungal polarization network, In Genome Biology and Evolution Volume 10 p.1765-1782.

Abigail L. Manson, Thomas Abeel, James Galagan, Jagadish Chandrabose Sundaramurthi, Siva Kumar Shanmugam, Kannan Palaniyandi, Sujatha Narayanan, Soumya Swaminathan, Ashlee M. Earl (2018), Reply to Lee and Howden.

Christophe Georgescu, Abigail L. Manson McGuire, Alexander D. Griggs, Christopher A. Desjardins, Alejandro Pironti, Ilan Wapinski, Thomas Abeel, Brian J. Haas, Ashlee M. Earl (2018), SynerClust: A highly scalable, synteny-aware orthologue clustering tool, In Microbial Genomics Volume 4 p.1-7.

Arthur Gorter de Vries, Aafke van Aalst, Liset Jansen, L.H. Christensen, Marcel van den Broek, Alex Salazar, Nick Brouwers, Thomas Abeel, Jack Pronk, Jean Marc Daran (2017), Evolution of laboratory-made S. cerevisiae x S. eubayanus hybrid to investigate the domestication of S. pastorianus, 33rd ISSY - conference in Cork.

Abigail L. Manson, Keira A Cohen, Thomas Abeel, Christopher A. Desjardins, Derek T. Armstrong, Clifton E. Barry III, Jeannette Brand, Sinéad B. Chapman, Sang-Nae Cho, Andrei Gabrielian, Alex Salazar, More Authors (2017), Genomic analysis of globally diverse Mycobacterium tuberculosis strains provides insights into the emergence and spread of multidrug resistance, In Nature Genetics Volume 49 p.395-402.