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*equal contribution


Jones, M.J.K.†, Rai, S.K., Pfuderer, P.L., Bonfim-Melo, A., Pagan, J.K., Clarke, P.R., McClelland, S.E., Boemo, M.A.† (2022) A high-resolution, nanopore-based artificial intelligence assay for DNA replication stress in human cancer cells.


Totanes, F.I.G., Gockel, J., Chapman, S.E., Bartfai, R., Boemo, M.A.†, Merrick, C.J.† (2023) Replication origin mapping in the malaria parasite Plasmodium falciparum. Nucleic Acids Research.



Shaikh, N.*, Mazzagatti, A.*, Bakker, B., Spierings, D.C.J.E., Wardenaar, R., Maniati, E., Larsson, P., Wang, J., Boemo, M.A., Foijer, F., McClelland, S.E.† (2022) DNA replication stress generates distinctive landscapes of DNA copy number alterations and chromosome scale losses. Genome Biology 23:223.



Boemo, M.A.† (2021) DNAscent v2: Detecting replication forks in nanopore sequencing data with deep learning. BMC Genomics 22:430.



Aydogan, M.G.*†, Steinacker, T.L.*, Mofatteh, M., Wilmott, Z.M., Zhou, F.Y., Gartenmann, L., Wainman, A., Saurya, S., Novak, Z.A., Wong, S., Goriely, A., Boemo, M.A., Raff, J.W. (2020) A free-running oscillator times and executes centriole biogenesis. Cell 181:1-16.



Boemo, M.A.†, Cardelli, L., Nieduszynski, C.A. (2020) The Beacon Calculus: A formal method for the flexible and concise modelling of biological systems. PLoS Computational Biology 16:e1007651.



Mueller, C.A.*, Boemo, M.A.*, Spingardi, P., Kessler, B. Kriaucionis, S. Simpson, J.T., Nieduszynski, C.A.† (2019) Capturing the dynamics of genome replication on individual ultra-long nanopore sequencing reads.  Nature Methods 16:429-436.



Boemo, M.A., Byrne, H.M. (2018) Mathematical modelling of a hypoxia-regulated oncolytic virus delivered by tumour-associated macrophages. Journal of Theoretical Biology 461:102-116. 


Boemo, M.A., Lucas, A.E., Turberfield, A.J., Cardelli, L. (2016) The formal language and design principles of autonomous DNA walker circuits. ACS Synthetic Biology 5:878-884. 


Boemo, M.A., Turberfield, A.J., Cardelli, L. (2015) Automated design and verification of localized DNA computation circuits. In: Phillips, A., Yin, P. (eds.) DNA 2015. LNCS, vol. 9211, p. 1-13. Springer, Heidelberg. 


Wagh, K.*, Bhatia, A.*, Alexe, G., Reddy, A., Ravikumar, V., Seiler, M., Boemo, M., Yao, M., Cronk, L., Naqvi, A., Ganesan, S., Levine, A.J., Bhanot, G. (2012) Lactase persistence and lipid pathway selection in the Maasai. PLoS ONE 7: e44751. 


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