Imperial College London


Faculty of Natural SciencesDepartment of Mathematics

Chair in Biomathematics



+44 (0)20 7594 8528m.barahona




6M31Huxley BuildingSouth Kensington Campus





Mauricio Barahona obtained a PhD in Theoretical Physics (Dynamical Systems and Condensed Matter) from the Massachusetts Institute of Technology (MIT) under the supervision of Steve Strogatz (Mathematics) and Mehran Kardar (Physics). His thesis dealt with the spatio-temporal dynamics of networks of Josephson junctions - superconducting electronic devices which can be described as coupled nonlinear oscillators. Concurrently, he developed algorithmic tools which, using concepts of information theory and dynamical systems, allow for the sensitive statistical detection of nonlinear dynamics in data. He then conducted postdoctoral research at Stanford University and the California Institute of Technology. At Stanford, he worked on generic properties of array synchronization with applications to pattern detection. At Caltech, in the Department of Control and Dynamical Systems, he concentrated on rigorous bounds of model reduction techniques, and on the analysis of network dynamics using graph-theoretical concepts. He came to Imperial as a Lecturer in 2001 and became a Reader in Biomathematics in 2004. In 2011, he moved to the Department of Mathematics as Chair of Biomathematics.

STudentship available 

4-year PhD studentship
Unravelling G-quadruplex DNA Dynamics through Multiscale Graph Partitioning 

Prof Sophia Yaliraki (Theoretical Chemistry), Prof Mauricio Barahona (Mathematics),

 Dr Liming Ying (Physical Chemistry, Medicine), Prof Ramon Vilar (Biophysical Chemistry and Synthesis, Chemistry)

Full studentship for UK and EU students.

To apply and for more information, click here

Research Interests

Broadly interested in applied mathematics in biological, physical and engineering systems.

  • Dynamics of networks of interconnected nonlinear systems: graph theory and dynamics 
  • Theory of synchronization: Coupled oscillators in biology and engineering, flocking phenomena
  • Algorithms for nonlinear signal analysis: Nonlinear detection, network reconstruction 
  • Multiscale dynamics and model reduction of bio-systems:  Viral capsids, protein dynamics
  • Mathematical and computational biology: metabolic and genetic networks (deterministic and stochastic); regulation and biophysical control  

Selected Publications

Journal Articles

Kiselev VY, Kirschner K, Schaub MT, et al., 2017, SC3: consensus clustering of single-cell RNA-seq data., Nat Methods, Vol:14, Pages:483-486

Schaub MT, O'Clery N, Billeh YN, et al., 2016, Graph partitions and cluster synchronization in networks of oscillators, Chaos, Vol:26, ISSN:1054-1500

Kuntz J, Ottobre M, Stan G-B, et al., 2016, BOUNDING STATIONARY AVERAGES OF POLYNOMIAL DIFFUSIONS VIA SEMIDEFINITE PROGRAMMING, SIAM Journal on Scientific Computing, Vol:38, ISSN:1064-8275, Pages:A3891-A3920

Amor BRC, Schaub MT, Yaliraki S, et al., 2016, Prediction of allosteric sites and mediating interactions through bond-to-bond propensities, Nature Communications, Vol:7, ISSN:2041-1723

Dattani J, Barahona M, Stochastic models of gene transcription with upstream drives: Exact solution and sample path characterisation, Journal of the Royal Society Interface, ISSN:1742-5689

Bacik KA, Schaub MT, Beguerisse-Diaz M, et al., 2016, Flow-Based Network Analysis of the Caenorhabditis elegans Connectome, PLOS Computational Biology, Vol:12, ISSN:1553-734X

Beguerisse-Diaz M, McLennan AK, Garduño-Hernández G, et al., 2017, The 'who' and 'what' of #diabetes on Twitter, Digital Health, Vol:3, ISSN:2055-2076, Pages:1-29

Sim A, Yaliraki SN, Barahona M, et al., 2015, Great cities look small., Journal of the Royal Society Interface, Vol:12, ISSN:1742-5689

Noseda M, Harada M, McSweeney S, et al., 2015, PDGFRα demarcates the cardiogenic clonogenic Sca1(+) stem/progenitor cell in adult murine myocardium., Nature Communications, Vol:6, ISSN:2041-1723, Pages:6930-6930

Schaub MT, Billeh YN, Anastassiou CA, et al., 2015, Emergence of Slow-Switching Assemblies in Structured Neuronal Networks, PLOS Computational Biology, Vol:11, ISSN:1553-734X

Lambiotte R, Delvenne JC, Barahona M, 2014, Random walks, Markov processes and the multiscale modular organization of complex networks, Ieee Transactions on Network Science and Engineering, Vol:1, Pages:76-90

Wang B, Barahona M, Buck M, 2015, Amplification of small molecule-inducible gene expression via tuning of intracellular receptor densities, Nucleic Acids Research, Vol:43, ISSN:0305-1048, Pages:1955-1964

Branch T, Girvan P, Barahona M, et al., 2015, Introduction of a Fluorescent Probe to Amyloid-beta to Reveal Kinetic Insights into Its Interactions with Copper(II), Angewandte Chemie - International Edition, Vol:54, ISSN:1433-7851, Pages:1227-1230

Georgiou PS, Barahona M, Yaliraki SN, et al., 2014, On memristor ideality and reciprocity, Microelectronics Journal, Vol:45, ISSN:0026-2692, Pages:1363-1371

Billeh YN, Schaub MT, Anastassiou CA, et al., 2014, Revealing cell assemblies at multiple levels of granularity, Journal of Neuroscience Methods, Vol:236, ISSN:0165-0270, Pages:92-106

Wang B, Barahona M, Buck M, 2014, Engineering modular and tunable genetic amplifiers for scaling transcriptional signals in cascaded gene networks, Nucleic Acids Research, Vol:42, ISSN:0305-1048, Pages:9484-9492

Amor B, Yaliraki SN, Woscholski R, et al., 2014, Uncovering allosteric pathways in caspase-1 using Markov transient analysis and multiscale community detection, Molecular Biosystems, Vol:10, ISSN:1742-206X, Pages:2247-2258

Beguerisse-Díaz M, Garduño-Hernández G, Vangelov B, et al., 2014, Interest communities and flow roles in directed networks: the Twitter network of the UK riots, J. R. Soc. Interface 6 December 2014, Vol:11

Wang B, Barahona M, Buck M, 2013, A modular cell-based biosensor using engineered genetic logic circuits to detect and integrate multiple environmental signals, Biosensors & Bioelectronics, Vol:40, ISSN:0956-5663, Pages:368-376

Beguerisse Diaz M, Desikan R, Barahona M, 2016, Linear models of activation cascades: analytical solutions and coarse-graining of delayed signal transduction, Journal of the Royal Society Interface, Vol:13, ISSN:1742-5689

Schaub MT, Delvenne J-C, Yaliraki SN, et al., 2012, Markov Dynamics as a Zooming Lens for Multiscale Community Detection: Non Clique-Like Communities and the Field-of-View Limit, PLOS One, Vol:7, ISSN:1932-6203

Georgiou PS, Barahona M, Yaliraki SN, et al., 2012, Device Properties of Bernoulli Memristors, Proceedings of the IEEE, Vol:100, ISSN:0018-9219, Pages:1938-1950

Delvenne J-C, Yaliraki SN, Barahona M, 2010, Stability of graph communities across time scales, Proceedings of the National Academy of Sciences of the United States of America, Vol:107, ISSN:0027-8424, Pages:12755-12760

Strelkowa N, Barahona M, 2010, Switchable genetic oscillator operating in quasi-stable mode, Journal of the Royal Society Interface, Vol:7, ISSN:1742-5689, Pages:1071-1082

Chang HH, Hemberg M, Barahona M, et al., 2008, Transcriptome-wide noise controls lineage choice in mammalian progenitor cells, Nature, Vol:453, ISSN:0028-0836, Pages:544-U10

Barahona M, Pecora LM, 2002, Synchronization in small-world systems, Physical Review Letters, Vol:89, ISSN:0031-9007

Barahona M, Poon CS, 1996, Detection of nonlinear dynamics in short, noisy time series, Nature, Vol:381, ISSN:0028-0836, Pages:215-217


Amor B, Vuik S, Callahan R, et al., 2016, Community detection and role identification in directed networks: understanding the Twitter network of the debate, Dynamic Networks and Cyber-Security, Editor(s): Adams, Heard, World Scientific, Pages:111-136, ISBN:978-1-60558752-3

Delvenne J-C, Schaub MT, Yaliraki SN, et al., The stability of a graph partition: A dynamics-based framework for community detection


Jadbabaie A, Motee N, Barahona M, 2004, On the stability of the Kuramoto model of coupled nonlinear oscillators, American Control Conference, IEEE, Pages:4296-4301, ISSN:0743-1619

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