My research work and that of my group, the Theoretical Systems Biology group, is centered around reverse-engineering the structure, dynamics and evolutionary history of biological systems. To this end we develop and employ a range of statistical modelling techniques, comparative and evolutionary approaches and text-mining technologies.

This suite of tools is applied to study signal transduction, gene regulation and physical interaction networks in organisms ranging from Escherichia coli to humans, their role in health and disease, and novel therapeutic approaches.

Crowell HL, MacLean AL, Stumpf MPH, 2016, Feedback mechanisms control coexistence in a stem cell model of acute myeloid leukaemia, JOURNAL OF THEORETICAL BIOLOGY, Vol: 401, Pages: 43-53, ISSN: 0022-5193 Fan S, Geissmann Q, Lakatos E, Lukauskas S, Ale A, Babtie AC, Kirk PD, Stumpf MPet al., 2016, MEANS: python package for Moment Expansion Approximation, iNference and Simulation, Bioinformatics, Vol: 32, Pages: 2863-2865, ISSN: 1367-4803 Filippi S, Barnes CP, Kirk PDW, Kudo T, Kunida K, McMahon SS, Tsuchiya T, Wada T, Kuroda S, Stumpf MPHet al., 2016, Robustness of MEK-ERK Dynamics and Origins of Cell-to-Cell Variability in MAPK Signaling, CELL REPORTS, Vol: 15, Pages: 2524-2535, ISSN: 2211-1247 Lenive O, Kirk PDW, Stumpf MPH, 2016, Inferring extrinsic noise from single-cell gene expression data using approximate Bayesian computation, BMC SYSTEMS BIOLOGY, Vol: 10, ISSN: 1752-0509 Liepe J, Sim A, Weavers H, Ward L, Martin P, Stumpf MPet al., 2016, Accurate Reconstruction of Cell and Particle Tracks from 3D Live Imaging Data., Cell Syst, Vol: 3, Pages: 102-107, ISSN: 2405-4712 MacLean AL, Harrington HA, Stumpf MP, Byrne HMet al., 2016, Mathematical and Statistical Techniques for Systems Medicine: The Wnt Signaling Pathway as a Case Study., Methods Mol Biol, Vol: 1386, Pages: 405-439 MacLean AL, Lo Celso C, Stumpf MP, 2016, Concise Review: Stem Cell Population Biology: Insights from Hematopoiesis., Stem Cells Smadbeck P, Stumpf MPH, 2016, Coalescent models for developmental biology and the spatio-temporal dynamics of growing tissues, JOURNAL OF THE ROYAL SOCIETY INTERFACE, Vol: 13, ISSN: 1742-5689 Vainieri ML, Blagborough AM, MacLean AL, Haltalli ML, Ruivo N, Fletcher HA, Stumpf MP, Sinden RE, Celso CLet al., 2016, Systematic tracking of altered haematopoiesis during sporozoite-mediated malaria development reveals multiple response points., Open Biol, Vol: 6 Weavers H, Liepe J, Sim A, Wood W, Martin P, Stumpf MPHet al., 2016, Systems Analysis of the Dynamic Inflammatory Response to Tissue Damage Reveals Spatiotemporal Properties of the Wound Attractant Gradient, CURRENT BIOLOGY, Vol: 26, Pages: 1975-1989, ISSN: 0960-9822 Zurauskiene J, Kirk PDW, Stumpf MPH, 2016, A graph theoretical approach to data fusion, STATISTICAL APPLICATIONS IN GENETICS AND MOLECULAR BIOLOGY, Vol: 15, Pages: 107-122, ISSN: 2194-6302 Johnsony R, Kirky P, Stumpf MPH, 2015, SYSBIONS: nested sampling for systems biology, BIOINFORMATICS, Vol: 31, Pages: 604-605, ISSN: 1367-4803 Jones PJM, Sim A, Taylor HB, Bugeon L, Dallman MJ, Pereira B, Stumpf MPH, Liepe Jet al., 2015, Inference of random walk models to describe leukocyte migration, PHYSICAL BIOLOGY, Vol: 12, ISSN: 1478-3967 Jovanovic G, Sheng X, Ale A, Feliu E, Harrington HA, Kirk P, Wiuf C, Buck M, Stumpf MPHet al., 2015, Phosphorelay of non-orthodox two component systems functions through a bi-molecular mechanism in vivo: the case of ArcB, MOLECULAR BIOSYSTEMS, Vol: 11, Pages: 1348-1359, ISSN: 1742-206X Kirk P, Rolando DMY, MacLean AL, Stumpf MPHet al., 2015, Conditional random matrix ensembles and the stability of dynamical systems, New Journal of Physics, Vol: 17, ISSN: 1367-2630 Kirk PDW, Babtie AC, Stumpf MPH, 2015, Systems biology (un)certainties, SCIENCE, Vol: 350, Pages: 386-388, ISSN: 0036-8075 Lakatos E, Ale A, Kirk PDW, Stumpf MPHet al., 2015, Multivariate moment closure techniques for stochastic kinetic models, JOURNAL OF CHEMICAL PHYSICS, Vol: 143, ISSN: 0021-9606 Liepe J, Holzhuetter H-G, Bellavista E, Kloetzel PM, Stumpf MPH, Mishto Met al., 2015, Quantitative time-resolved analysis reveals intricate, differential regulation of standard- and immuno-proteasomes, ELIFE, Vol: 4, ISSN: 2050-084X MacLean AL, Kirk PDW, Stumpf MPH, 2015, Cellular population dynamics control the robustness of the stem cell niche, BIOLOGY OPEN, Vol: 4, Pages: 1420-1426, ISSN: 2046-6390 Mc Mahon SS, Lenive O, Filippi S, Stumpf MPHet al., 2015, Information processing by simple molecular motifs and susceptibility to noise, JOURNAL OF THE ROYAL SOCIETY INTERFACE, Vol: 12, ISSN: 1742-5689