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  • Journal article
    Wang B, Barahona M, Buck M, Schumacher Jet al., 2013,

    Rewiring cell signalling through chimaeric regulatory protein engineering

    , BIOCHEMICAL SOCIETY TRANSACTIONS, Vol: 41, Pages: 1195-1200, ISSN: 0300-5127
  • Book chapter
    Delvenne J-C, Schaub MT, Yaliraki S, Barahona Met al., 2013,

    The stability of a graph partition: A dynamics-based framework for community detection

    , Dynamics On and Of Complex Networks, Volume 2, Editors: Mukherjee, Choudhury, Peruani, Ganguly, Mitra, Publisher: Springer, Pages: 221-242, ISBN: 978-1-4614-6728-1

    Recent years have seen a surge of interest in the analysis of complexnetworks, facilitated by the availability of relational data and theincreasingly powerful computational resources that can be employed for theiranalysis. Naturally, the study of real-world systems leads to highly complexnetworks and a current challenge is to extract intelligible, simplifieddescriptions from the network in terms of relevant subgraphs, which can provideinsight into the structure and function of the overall system. Sparked by seminal work by Newman and Girvan, an interesting line of researchhas been devoted to investigating modular community structure in networks,revitalising the classic problem of graph partitioning. However, modular or community structure in networks has notoriously evadedrigorous definition. The most accepted notion of community is perhaps that of agroup of elements which exhibit a stronger level of interaction withinthemselves than with the elements outside the community. This concept hasresulted in a plethora of computational methods and heuristics for communitydetection. Nevertheless a firm theoretical understanding of most of thesemethods, in terms of how they operate and what they are supposed to detect, isstill lacking to date. Here, we will develop a dynamical perspective towards community detectionenabling us to define a measure named the stability of a graph partition. Itwill be shown that a number of previously ad-hoc defined heuristics forcommunity detection can be seen as particular cases of our method providing uswith a dynamic reinterpretation of those measures. Our dynamics-based approachthus serves as a unifying framework to gain a deeper understanding of differentaspects and problems associated with community detection and allows us topropose new dynamically-inspired criteria for community structure.
  • Journal article
    Arpino JAJ, Hancock EJ, Anderson J, Barahona M, Stan G-BV, Papachristodoulou A, Polizzi Ket al., 2013,

    Tuning the dials of Synthetic Biology

    , Microbiology-Sgm, Vol: 159, Pages: 1236-1253, ISSN: 1465-2080
  • Journal article
    Yuan Y, Stan G-B, Shi L, Barahona M, Goncalves Jet al., 2013,

    Decentralised minimum-time consensus

    , AUTOMATICA, Vol: 49, Pages: 1227-1235, ISSN: 0005-1098
  • Journal article
    Dominguez-Huettinger E, Ono M, Barahona M, Tanaka RJet al., 2013,

    Risk factor-dependent dynamics of atopic dermatitis: modelling multi-scale regulation of epithelium homeostasis

    , INTERFACE FOCUS, Vol: 3, ISSN: 2042-8898
    • Cite
    • Citations: 12
  • Journal article
    Beguerisse-Diaz M, Vangelov B, Barahona M, 2013,

    Finding role communities in directed networks using Role-Based Similarity, Markov Stability and the Relaxed Minimum Spanning Tree

    , 2013 IEEE GLOBAL CONFERENCE ON SIGNAL AND INFORMATION PROCESSING (GLOBALSIP), Pages: 937-940, ISSN: 2376-4066
    • Cite
    • Citations: 17
  • Journal article
    Beguerisse-Diaz M, Hernandez-Gomez M, Lizzul A, Barahona M, Desikan Ret al., 2012,

    Compound stress responses in stomatal closure: a systems model of ABA and ethylene interactions in guard cells

    , Bmc Systems Biology, Vol: 6
  • Journal article
    Thomas P, Grima R, Straube AV, 2012,

    Rigorous elimination of fast stochastic variables from the linear noise approximation using projection operators

    , PHYSICAL REVIEW E, Vol: 86, ISSN: 2470-0045
    • Cite
    • Citations: 36
  • Journal article
    Kaloriti D, Tillmann A, Cook E, Jacobsen M, You T, Lenardon M, Ames L, Barahona M, Chandrasekaran K, Coghill G, Goodman D, Gow NAR, Grebogi C, Ho H-L, Ingram P, McDonagh A, de Moura APS, Pang W, Puttnam M, Radmaneshfar E, Romano MC, Silk D, Stark J, Stumpf M, Thiel M, Thorne T, Usher J, Yin Z, Haynes K, Brown AJPet al., 2012,

    Combinatorial stresses kill pathogenic <i>Candida</i> species

    , MEDICAL MYCOLOGY, Vol: 50, Pages: 699-709, ISSN: 1369-3786
  • Journal article
    Phoka E, Wildie M, Schultz SR, Barahona Met al., 2012,

    Sensory experience modifies spontaneous state dynamics in a large-scale barrel cortical model

    , JOURNAL OF COMPUTATIONAL NEUROSCIENCE, Vol: 33, Pages: 323-339, ISSN: 0929-5313

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