Summary
Dr Vahid Shahrezaei is a Senior Lecturer in Biomathematics. Before joining Imperial he was a postdoctoral fellow in center for nonlinear dynamics at McGill University in Montreal. He did his PhD at Simon Fraser University, Vancouver.
The main area of Dr Shahrezaei's research is Computational Molecular Systems Biology. He is interested in studying design principles that enable cells to function robustly, in spite of significant inherent stochasticity and environmental noise. To this end, a combination of analytical and computational methods is used to investigate the temporal, spatial and stochastic dynamics of biochemical networks.
Interested PhD students should contact Dr Shahrezaei by email.
For more information please check out the Personal Webpage.
Selected Publications
Journal Articles
Kleijn IT, Marguerat S, Shahrezaei V, 2023, A coarse-grained resource allocation model of carbon and nitrogen metabolism in unicellular microbes, Journal of the Royal Society Interface, Vol:20, ISSN:1742-5662
Tang W, Jørgensen ACS, Marguerat S, et al., 2023, Modelling capture efficiency of single-cell RNA-sequencing data improves inference of transcriptome-wide burst kinetics, Bioinformatics, Vol:39, ISSN:1367-4803, Pages:1-9
Bertaux F, Kleijn I, Marguerat S, et al., 2023, Fission yeast obeys a linear size law under nutrient titration, Micropublication Biology, Vol:2023, ISSN:2578-9430
Jorgensen ACS, Hill CS, Sturrock M, et al., 2023, Data-driven spatio-temporal modelling of glioblastoma, Royal Society Open Science, Vol:10, ISSN:2054-5703
Jorgensen ACS, Ghosh A, Sturrock M, et al., 2022, Efficient Bayesian inference for stochastic agent-based models, PLOS Computational Biology, Vol:18, ISSN:1553-734X
Ciechonska M, Sturrock M, Grob A, et al., 2022, Emergent expression of fitness-conferring genes by phenotypic selection, Pnas Nexus, Vol:1, ISSN:2752-6542, Pages:1-13
Thomas P, Shahrezaei V, 2021, Coordination of gene expression noise with cell size: analytical results for agent-based models of growing cell populations, Journal of the Royal Society Interface, Vol:18, ISSN:1742-5662, Pages:1-16
Bertaux F, von Kugelgen J, Marguerat S, et al., 2020, A bacterial size law revealed by a coarse-grained model of cell physiology, PLOS Computational Biology, Vol:16, ISSN:1553-734X
Rodosthenous T, Shahrezaei V, Evangelou M, 2020, Integrating multi-OMICS data through sparse Canonical Correlation Analysis for the prediction of complex traits: A comparison study, Bioinformatics, Vol:36, ISSN:1367-4803, Pages:4616-4625
Sun X-M, Bowman A, Priestman M, et al., 2020, Size-dependent increase in RNA Polymerase II initiation rates mediates gene expression scaling with cell size, Current Biology, Vol:30, ISSN:0960-9822, Pages:1217-1230.e7
Tang W, Bertaux F, Thomas P, et al., 2020, bayNorm: Bayesian gene expression recovery, imputation and normalisation for single cell RNA-sequencing data, Bioinformatics, Vol:36, ISSN:1367-4803, Pages:1174-1181
Saint M, Bertaux F, Tang W, et al., 2019, Single-cell imaging and RNA sequencing reveal patterns of gene expression heterogeneity during fission yeast growth and adaptation, Nature Microbiology, Vol:4, ISSN:2058-5276, Pages:480-491
Bertaux F, Marguerat S, Shahrezaei V, 2018, Division rate, cell size and proteome allocation: impact on gene expression noise and implications for the dynamics of genetic circuits, Royal Society Open Science, Vol:5, ISSN:2054-5703
Sturrock M, Li S, Shahrezaei V, 2017, The influence of nuclear compartmentalisation on stochastic dynamics of self-repressing gene expression, Journal of Theoretical Biology, Vol:424, ISSN:0022-5193, Pages:55-72
Archer N, Walsh MD, Shahrezaei V, et al., 2016, Modeling Enzyme Processivity Reveals that RNA-Seq Libraries Are Biased in Characteristic and Correctable Ways, Cell Systems, Vol:3, ISSN:2405-4712, Pages:467-479.E12
Shahrezaei V, Marguerat S, 2015, Connecting growth with gene expression: of noise and numbers., Current Opinion in Microbiology, Vol:25, ISSN:1879-0364, Pages:127-135
Robb ML, Shahrezaei V, 2014, Stochastic Cellular Fate Decision Making by Multiple Infecting Lambda Phage, PLOS One, Vol:9, ISSN:1932-6203
Dushek O, van der Merwe PA, Shahrezaei V, 2011, Ultrasensitivity in Multisite Phosphorylation of Membrane-Anchored Proteins, Biophysical Journal, Vol:100, ISSN:0006-3495, Pages:1189-1197
Malleshaiah MK, Shahrezaei V, Swain PS, et al., 2010, The scaffold protein Ste5 directly controls a switch-like mating decision in yeast, Nature, Vol:465, ISSN:0028-0836, Pages:101-105
Shahrezaei V, Swain PS, 2008, Analytical distributions for stochastic gene expression, Proceedings of the National Academy of Sciences of the United States of America, Vol:105, ISSN:0027-8424, Pages:17256-17261
Shahrezaei V, Swain PS, 2008, The stochastic nature of biochemical networks, Current Opinion in Biotechnology, Vol:19, ISSN:0958-1669, Pages:369-374
Shahrezaei V, Ollivier JF, Swain PS, 2008, Colored extrinsic fluctuations and stochastic gene expression, Molecular Systems Biology, Vol:4, ISSN:1744-4292
Shahrezaei V, Cao A, Delaney KR, 2006, Ca<SUP>2+</SUP> from one or two channels controls fusion of a single vesicle at the frog neuromuscular junction, Journal of Neuroscience, Vol:26, ISSN:0270-6474, Pages:13240-13249