skip to content

Department of Plant Sciences


Research group


Research overview

My research has focused on modelling and parametrisation of biological systems at different spatial and temporal scales, based on the experimental and observed data.




 Retkute R.,  Touloupou P.,  Basanez M.G., Hollingsworth D.T., Spencer S.E (2020) Integrating geostatistical maps and infectious disease transmission models using adaptive multiple importance sampling. doi: 10.1101/2020.08.03.20146241

 Touloupou P.,  Retkute R.Hollingsworth D.T., Spencer S.E (2020) Statistical methods for linking geostatistical maps and transmission models: Application to lymphatic filariasis in East Africa. Spatial and Spatio-temporal Epidemiology. doi: 10.1016/j.sste.2020.100391

 Retkute R., Dilger E., Hamilton J.G.C., Keeling M.J. (2020) Spatial modelling of sand fly vector’s response to a synthetic sex-aggregation pheromone: impact on the incidence of visceral leishmaniasis in rural and urban settings. doi: 10.1101/2020.10.18.20214569

Stutt R.O.J.H., Retkute R., Bradley M., Gilligan C.A., Colvin J. (2020) A modelling framework to assess the likely effectiveness of facemasks in combinationwith ‘lock-down’ in managing the COVID-19 pandemic. Proc.R.Soc.A476: 20200376 doi: 10.1098/rspa.2020.0376 

Minter A.*, Retkute R.* (2019) Approximate Bayesian Computation for infectious disease modelling, Epidemics, 29: 100368,  doi: 10.1016/j.epidem.2019.100368

Retkute R., Jewell C.P., Van Boeckel T., Zhang G., Xiao X., Thanapongtharm W., Keeling M., Gilbert M., Tildesley M.J. (2018) Dynamics of the 2004 avian influenza H5N1 outbreak in Thailand: the role of duck farming, sequential model fitting and control, Preventive Veterinary Medicine, 159: 171-181, doi:10.1016/j.prevetmed.2018.09.014



Foo C.C., Burgess A.J., Retkute R., Tree-Intong P., Ruban A.V., E H Murchie E.H.(2020) Photoprotective energy dissipation is greater in the lower, not the upper regions of a rice canopy: a 3D analysis,  Journal of Experimental Botany, eraa411, doi:10.1093/jxb/eraa411

Retkute R., Townsend A.J., Murchie E.H., Jensen O.E., Preston S.P. (2018) Three-dimensional plant architecture and sunlit-shaded patterns: a stochastic model of light dynamics in canopies, Annals of Botany, 122:2 291-302, doi:10.1093/aob/mcy067

Burgess A.J., Retkute R., Herman T., Murchie E.H. (2018) Exploring Relationships between Canopy Architecture, Light Distribution, and Photosynthesis in Contrasting Rice Genotypes Using 3D Canopy Reconstruction, Frontiers in Plant Science, 8:734 1-15, doi:10.3389/fpls.2017.00734



Prusokas A.Hawkins M.Nieduszynski C.A.Retkute R. (2020) The effectiveness of glass beads for plating cell cultures. doi: 10.1101/241752


Machine Learning 

Tarka A.L. and The DREAM Preterm Birth Prediction Challenge Consortium [et al, including Retkute, R.] (2020) Crowdsourcing assessment of maternal blood multi-omics for predicting gestational age and preterm birth,  

Douglass E.F. and The DREAM CTD-squared Pancancer Drug Activity Challenge Consortium [et al, including Retkute, R.] (2020) A Community Challenge for Pancancer Drug Mechanism of Action Inference from Perturbational Profile Data,

Genome Replication

Dimude J.U., Stein M., Andrzejewska E.E., Khalifa M.S., Retkute R., Skovgaard O., Rudolph C.J. (2018) Origins left, right and centre: increasing the number of initiation sites in the Escherichia coli chromosome, Genes 9(8), 376, doi:10.3390/genes9080376

Ivanova D., Taylor T., Smith S.L., Dimude J.U., Upton A.L., Mehrjouy M.M., Skovgaard O., Sherratt D.J., Retkute R., Rudolph C.J. (2015) Shaping the landscape of the Escherichia coli chromosome: replication- transcription encounters in cells with an ectopic replication origin, Nuclear Acids Research , 43(16): 7865- 7877, doi: 10.1093/nar/gkv704

Research Associate
Dr Renata  Retkute

Contact Details

Email address: 
Department of Plant Sciences,
University of Cambridge,
Downing Street,
01223 748957