Contact

• workRoom B48 Computer Science
  Jubilee Campus
  Wollaton Road
  Nottingham
  NG8 1BB
  UK
• workn/a
• jamie.twycross@nottingham.ac.uk
• https://cs.nott.ac.uk/~pszjpt

Research Summary

I am an interdisciplinary Computer Scientist working at the interface of Computer Science and the biological sciences. My research focusses on developing computational modelling and machine learning… read more

Recent Publications

• CHEN C, TWYCROSS J and GARIBALDI J M, 2017. A new accuracy measure based on bounded relative error for time series forecasting PLoS ONE. 12(3), e0174202
• BAKER M, NEGUS D, RAGHUNATHAN D, RADFORD P, MOORE C, CLARK G, DIGGLE M, TYSON J, TWYCROSS J and SOCKETT RE, 2017. Measuring and modelling the response of Klebsiella pneumoniae KPC prey to Bdellovibrio bacteriovorus predation, in human serum and defined buffer. Scientific reports. 7(1), 8329
• CHEN C, TWYCROSS J and GARIBALDI JM, 2017. A new accuracy measure based on bounded relative error for time series forecasting. PloS one. 12(3), e0174202
• CHEN, CHAO, JOHN, ROBERT, TWYCROSS, JAMIE and GARIBALDI, JONATHAN M, 2016. An extended ANFIS architecture and its learning properties for type-1 and interval type-2 models

• View all publications

Current Research

I am an interdisciplinary Computer Scientist working at the interface of Computer Science and the biological sciences. My research focusses on developing computational modelling and machine learning approaches to address hard, real-world biological problems. My interdisciplinary research reflects my deep interest in understanding how the biological and digital worlds work and interact. I am a member of the Intelligent Modelling and Analysis Group, and lead the Modelling Group in the Synthetic Biology Research Centre. Research expertise

• computational and mathematical modelling
• machine learning and artificial intelligence
• data analytics and visualisation
• software engineering

Research areas

• computational biology
• synthetic biology
• systems biology
• systems medicine
• sustainable chemistry
• artificial life
• biologically-inspired computing
• artificial immune systems
• computer security and networking
• robotics

• CHEN C, TWYCROSS J and GARIBALDI J M, 2017. A new accuracy measure based on bounded relative error for time series forecasting PLoS ONE. 12(3), e0174202
• BAKER M, NEGUS D, RAGHUNATHAN D, RADFORD P, MOORE C, CLARK G, DIGGLE M, TYSON J, TWYCROSS J and SOCKETT RE, 2017. Measuring and modelling the response of Klebsiella pneumoniae KPC prey to Bdellovibrio bacteriovorus predation, in human serum and defined buffer. Scientific reports. 7(1), 8329
• CHEN C, TWYCROSS J and GARIBALDI JM, 2017. A new accuracy measure based on bounded relative error for time series forecasting. PloS one. 12(3), e0174202
• CHEN, CHAO, JOHN, ROBERT, TWYCROSS, JAMIE and GARIBALDI, JONATHAN M, 2016. An extended ANFIS architecture and its learning properties for type-1 and interval type-2 models
• BONTHALA VS, MAYES K, MORETON J, BLYTHE M, WRIGHT V, MAY ST, MASSAWE F, MAYES S and TWYCROSS J, 2016. Identification of Gene Modules Associated with Low Temperatures Response in Bambara Groundnut by Network-Based Analysis. PloS one. 11(2), e0148771
• BLAKES, JONATHAN, TWYCROSS, JAMIE, KONUR, SAVAS, ROMERO-CAMPERO, FRANCISCO JOSE, KRASNOGOR, NATALIO and GHEORGHE, MARIAN, 2014. Infobiotics Workbench: AP Systems Based Tool for Systems and Synthetic Biology. In: Applications of Membrane Computing in Systems and Synthetic Biology Springer International Publishing. 1-41
• BLAKES, J., TWYCROSS, J., ROMERO-CAMPERO, F.J. and KRASNOGOR, N., 2011. The Infobiotics Workbench: an integrated in silico modelling platform for systems and synthetic biology Bioinformatics. 27(23), 3323-3324
• DUPEUX, F., SANTIAGO, J., BETZ, K., TWYCROSS, J., PARK, S-Y., RODRIGUEZ, L., GONZALEZ-GUZMAN, M., JENSEN, M.R., KRASNOGOR, N., BLACKLEDGE, M., HOLDSWORTH, M., CUTLER, S.R., RODRIGUEZ, P.L. and MÁRQUEZ, J.A., 2011. A thermodynamic switch modulates abscisic acid receptor sensitivity EMBO Journal. 30(20), 4171-4184
• KERR, IAN D, CARRIER, DAVID J and TWYCROSS, JAMIE, 2011. Hormone transport. In: The Plant Plasma Membrane Springer. 379-397
• DUPEUX, FLORINE, SANTIAGO, JULIA, BETZ, KATJA, TWYCROSS, JAMIE, PARK, SANG-YOUL, RODRIGUEZ, LESIA, GONZALEZ-GUZMAN, MIGUEL, JENSEN, MALENE RINGKJØBING, KRASNOGOR, NATALIO, BLACKLEDGE, MARTIN and OTHERS, 2011. A thermodynamic switch modulates abscisic acid receptor sensitivity The EMBO journal. 30(20), 4171-4184
• TWYCROSS, J., BAND, L.R., BENNETT, M.J., KING, J.R. and KRASNOGOR, N., 2010. Stochastic and deterministic multiscale models for systems biology: an auxin-transport case study BMC Systems Biology. 4, 34
• TWYCROSS, J. and AICKELIN, U., 2010. Information fusion in the immune system Information Fusion. 11(1), 35-44
• JAMIE TWYCROSS, UWE AICKELIN and AMANDA WHITBROOK, 2010. Detecting Anomalous Process Behaviour using Second Generation Artificial Immune Systems International Journal of Unconventional Computing. 6 (3-4), 301-326
• GREENSMITH, JULIE, AICKELIN, UWE and TWYCROSS, JAMIE, 2010. Detecting danger: applying a novel immunological concept to intrusion detection systems arXiv preprint arXiv:1002.0696.
• KIM, JUNGWON, GREENSMITH, JULIE, TWYCROSS, JAMIE and AICKELIN, UWE, 2010. Malicious code execution detection and response immune system inspired by the danger theory arXiv preprint arXiv:1003.4142.
• TWYCROSS, JAMIE and AICKELIN, UWE, 2010. Information fusion in the immune system Information Fusion. 11(1), 35-44
• TWYCROSS, JAMIE, BAND, LEAH, BENNETT, MALCOLM, KING, JOHN and KRASNOGOR, NATALIO, 2010. Stochastic and deterministic multiscale models for systems biology: an auxin-transport case study BMC systems biology. 4(1), 34
• TWYCROSS, JAMIE, AICKELIN, UWE and WHITBROOK, AMANDA, 2010. Detecting Anomalous Process Behaviour using Second Generation Artificial Immune Systems. International Journal of Unconventional Computing. 6,
• TWYCROSS, JAMIE and AICKELIN, UWE, 2010. Experimenting with innate immunity arXiv preprint arXiv:1004.2854.
• GARCÍA-MARTÍNEZ, CARLOS, LIMA, CLAUDIO, TWYCROSS, JAMIE, KRASNOGOR, NATALIO and LOZANO, MANUEL, 2010. P system model optimisation by means of evolutionary based search algorithms In: Proceedings of the 12th annual conference on Genetic and evolutionary computation. 187-194
• TWYCROSS, JAMIE and AICKELIN, UWE, 2010. Towards a Conceptual Framework for Innate Immunity arXiv preprint arXiv:1006.1568.
• ROMERO-CAMPERO, FRANCISCO J, TWYCROSS, JAMIE, CÁMARA, MIGUEL, BENNETT, MALCOLM, GHEORGHE, MARIAN and KRASNOGOR, NATALIO, 2009. Modular assembly of cell systems biology models using P systems International Journal of Foundations of Computer Science. 20(03), 427-442
• TWYCROSS, JAMIE and AICKELIN, UWE, 2009. An Immune Inspired Approach to Anomaly Detection arXiv preprint arXiv:0910.3117.
• ROMERO-CAMPERO, FRANCISCO JOSÉ, TWYCROSS, JAMIE, CAO, HONGQING, BLAKES, JONATHAN and KRASNOGOR, NATALIO, 2009. A multiscale modeling framework based on P systems. In: Membrane Computing Springer. 63-77
• ALLEN, ELIZABETH, HOOKS, MARK, BERGLUND, MARTIN, CASTRO, HILMAR, LOVRICS, ANNA, PEARSON, TAL, POPOVICH, NIKOLAS, TWYCROSS, JAMIE, VIGLIOTTI, MARIA GRAZIA, VILLASANIA, MINAYA and OTHERS, 2009. Modelling carbon assimilatory and recycling pathways in Arabidopsis seedlings
• JAMIE TWYCROSS and UWE AICKELIN, 2008. An Immune Inspired Approach to Anomaly Detection. In: Handbook of Research on Information Security and Assurance. Chapter X
• TWYCROSS, JAMIE, ROMERO-CAMPERO, FRANCISCO, BENNETT, MALCOLM, CÁMARA, MIGUEL and KRASNOGOR, NATALIO, 2008. Modular assembly of cell systems biology models using P systems Proceedings of Prague International Workshop on Membrane Computing. 51-62
• UWE AICKELIN, JAMIE TWYCROSS, THOMAS HESKETH-ROBERTS, 2007. Rule Generalisation in Intrusion Detection Systems using Snort International Journal of Electronic Security and Digital Forensics. 1(1), 101 - 116
• KIM, JUNGWON, BENTLEY, PETER J, AICKELIN, UWE, GREENSMITH, JULIE, TEDESCO, GIANNI and TWYCROSS, JAMIE, 2007. Immune system approaches to intrusion detection-a review Natural computing. 6(4), 413-466
• TWYCROSS, JAMIE and AICKELIN, UWE, 2007. Biological inspiration for artificial immune systems. In: Artificial immune systems Springer. 300-311
• AICKELIN, UWE, TWYCROSS, JAMIE and HESKETH-ROBERTS, THOMAS, 2007. Rule generalisation in intrusion detection systems using SNORT International Journal of Electronic Security and Digital Forensics. 1(1), 101-116
• JULIE GREENSMITH, JAMIE TWYCROSS, UWE AICKELIN, 2006. Dendritic Cells for Anomaly Detection In: Proceedings of the IEEE Congress on Evolutionary Computation (CEC 2006), Vancouver, Canada,. 664-671
• JAMIE TWYCROSS, UWE AICKELIN, 2006. libtissue - implementing innate immunity In: Proceedings of the IEEE Congress on Evolutionary Computation (CEC 2006), Vancouver, Canada. 499 -506
• JAMIE TWYCROSS and UWE AICKELIN, 2006. Experimenting with innate immunity In: Proceedings of the Workshop on Artificial Immune Systems and Immune System Modelling (AISB06), Bristol, UK. 18-19
• GREENSMITH, JULIE, AICKELIN, UWE and TWYCROSS, JAMIE, 2006. Articulation and clarification of the dendritic cell algorithm. In: Artificial Immune Systems Springer. 404-417
• GREENSMITH, JULIE, TWYCROSS, JAMIE and AICKELIN, UWE, 2006. Dendritic cells for anomaly detection In: Evolutionary Computation, 2006. CEC 2006. IEEE Congress on. 664-671
• TWYCROSS, JAMIE and AICKELIN, UWE, 2006. Libtissue-implementing innate immunity In: Evolutionary Computation, 2006. CEC 2006. IEEE Congress on. 499-506
• TEDESCO, GIANNI, TWYCROSS, JAMIE and AICKELIN, UWE, 2006. Integrating innate and adaptive immunity for intrusion detection. In: Artificial Immune Systems Springer. 193-202
• JUNGWON KIM, JULIE GREENSMITH, JAMIE TWYCROSS, UWE AICKELIN, 2005. Malicious Code Execution Detection and Response Immune System inspired by the Danger Theory In: Adaptive and Resilient Computing Security Workshop (ARCS-05).
• JAMIE TWYCROSS and UWE AICKELIN, 2005. Towards a Conceptual Framework for Innate Immunity In: Proceedings of the 4th International Conference on Artificial Immune Systems (ICARIS2005), Lecture Notes in Computer Science 3627, Banff, Canada. 112-125
• TWYCROSS, JAMIE and AICKELIN, UWE, 2005. Towards a conceptual framework for innate immunity. In: Artificial Immune Systems Springer. 112-125
• UWE AICKELIN, JULIE GREENSMITH, JAMIE TWYCROSS, 2004. Immune System Approaches to Intrusion Detection - A Review In: Proceedings of the Third International Conference 3rd International Conference on Artificial Immune Systems (ICARIS 2004). 316-329
• JULIE GREENSMITH, UWE AICKELIN, JAMIE TWYCROSS, 2004. Detecting Danger: Applying a Novel Immunological Concept to Intrusion Detection Systems In: 6th International Conference in Adaptive Computing in Design and Manufacture.
• AICKELIN, UWE, GREENSMITH, JULIE and TWYCROSS, JAMIE, 2004. Immune system approaches to intrusion detection-a review. In: Artificial Immune Systems Springer. 316-329
• TWYCROSS, JAMIE, 2004. Immune systems, danger theory and intrusion detection Proc. of the AISB Symposium on Immune Systems and Cognition. 40-42
• TWYCROSS, JAMIE and WILLIAMSON, MATTHEW M, 2003. Implementing and Testing a Virus Throttle. In: Usenix Security.
• TWYCROSS, JAMIE and CAYZER, STEVE, 2003. An immune-based approach to document classification. In: Intelligent Information Processing and Web Mining Springer. 33-46
• WILLIAMSON, MATTHEW M, TWYCROSS, JAMIE, GRIFFIN, JONATHAN and NORMAN, ANDY, 2003. Virus throttling Virus Bulletin, UK.
• TWYCROSS, JAMIE and CAYZER, S, 2002. An immune system approach to document classification Master's thesis, COGS, University of Sussex, UK. 2(00), 2