Research Themes

Research within the IDA Group is organised into the following four major themes. There are often, however, strong interactions and synergies among these individual themes.

Biomedical Informatics, Genomics, and Systems Biology

This research theme is concerned with the management, analysis and interpretation of a variety of biological and medical data to reveal hidden secrets in the health/disease process. Research topics include DNA microarray data analysis and modelling, integration of expression data, protein family, related structural and function data to reveal gene function, study of associations between genotype and phenotype to understand the disease process, and research and development of clinical decision support systems, e.g. in the areas of managing glaucoma and muscular dystrophy.

Selected Publications

V Vinciotti, X Liu, R Turk, E de Meijer and P t Hoen, "Exploiting the Full Power of Temporal Gene Expression Profiling through a New Statistical Test: Application to the Analysis of Muscular Dystrophy Data", BMC Bioinformatics, 7:183, (2006).

S Khalid, K Fraser, M Khan, P Wang, X Liu and S Li, "Analysing Microarray Data using the Multi-functional Immune Ontologiser", Journal of Integrative Bioinformatics, 3(2):25, (2006). http://journal.imbio.de/index.php?paper_id=25

V Vinciotti, A Tucker, P Kellam and X Liu, "The Robust Selection of Predictive Genes via a Simple Classifier", Applied Bioinformatics, 5:1-12, (2006).

R Khanin, V Vinciotti and E Wit, " Reconstructing repressor protein levels from expression of gene targets in E.Coli", PNAS 103(49):18592-6, 2006.

N Strouthidis, V Vinciotti, A Tucker, S Gardiner, D Crabb, and D F Garway-Heath, "Structure and Function in Glaucoma: The Relationship Between a Functional Visual Field Map and an Anatomical Retinal Map", Investigative Opthalmology and Visual Science, in press.
V Vinciotti, R Khanin, D DAlimonte, X Liu, N Cattini, G Bucca, O de Jesus, J Rasaiyaah, C Smith, P Kellam and E Wit, " An Experimental Evaluation of Loop versus Reference Design for Two-Channel Microarrays", Bioinformatics, 21:492-501, (2005).

A Tucker, V Vinciotti, X Liu and D Garway-Heath, "A Spatio-Temporal Bayesian Network Classifier for Understanding Visual Field Deterioration", Artificial Intelligence in Medicine, 34:163-177, (2005).

S Swift, A Tucker, V Vinciotti, N Martin, C Orengo, X Liu and P Kellam, " Consensus Clustering and Functional Interpretation of Gene Expression Data ", Genome Biology, 5:R94, (2004).

K Fraser, P O'Neill, Z Wang and X Liu, "Copasetic Analysis: A Framework for the Blind Analysis of Microarray Imagery", Systems Biology, 1:190-196, (2004).

H Critchlow, A Payne, and D Griffin, "Genes and Proteins Involved in the Control of Meiosis", Cytogenetic and Genome Research 105:4-10, (2004).

P O'Neill, G Magoulas, and X Liu, "Improved Processing of Microarray Data using Image Reconstruction", IEEE Transactions on Nanobioscience, 2(4), 176-183, (2003)

S Swift and X Liu, "Predicting Glaucomatous Visual Field Deterioration Through Short Multivariate Time Series Modelling", Artificial Intelligence in Medicine, 24:5-24, (2002).

P Kellam, X Liu, N Martin, C Orengo, S Swift and A Tucker, "A Framework for Modelling Virus Gene Expression Data", Intelligent Data Analysis, 6:265-279, (2002).

D Bessant, A Payne, K Mitton, Q Wang, K Swain, C Plant, A Bird, D Zack, A Swaroop, S Bhattacharya SS, "A mutation in the bZIP transcription factor NRL is associated with autosomal dominant retinitis pigmentosa in a family linked to a novel locus at 14q11", Nat Genet., 21(4):355-6, (1999).

K Cho, X Liu, G Loizou and J Wu, "An AI Approach to Dynamic Visual Field Testing", Journal of Biomedical Informatics, 31:143-63, (1998).

X Liu, G Cheng and J Wu, "AI for Public Health: Self-Screening for Eye Diseases", IEEE Intelligent Systems, 13(5):28-35, (1998).

Data Mining and Intelligent Systems

This research theme aims to develop various computationally intelligent techniques that will uncover useful knowledge from large amount of data. Research topics include Bayesian networks, customisation, evolutionary computation, human-computer collaboration, mining cognitive styles, neural networks, outlier detection and analysis, personalisation, pattern recognition, robotics, support vector machines, user modelling, and web navigation patterns.

Selected Publications

Z Wang, Y Liu, M Li, and X Liu, "Stability Analysis for Stochastic Cohen-Grossberg Neural Networks with Mixed Time Delays", IEEE Transactions on Neural Networks, in press

A Tucker, J Crampton, S Swift, "RGFGA: An Efficient Representation and Crossover for Grouping Genetic Algorithms", Evolutionary Computation, 13(4):477-99, 2005.

E Frias-Martinez, S Chen, and X Liu, "Data Mining Approaches to User Modeling for Adaptive Hypermedia: Survey and Future Directions", IEEE Transactions on Systems, Man and Cybernetics - Part C, in press.

S Counsell, J Crampton, and S Swift, "The Interpretation and Utility of Three Cohesion Metrics for Object-Oriented Design", ACM Transactions on Software-Engineering and Methodology, in press.

S Lauria, G Bugman, T Kyriacou, and E Klein, "Vision-Based Urban Navigation Procedures for Verbally Instructed Robots", Robotics and Autonomous Systems, in press.

E Frias-Martinez, S Chen, and X Liu, "Automatic Cognitive Style Identification of Digital Library Users for Personalization", Journal of the American Society for Information Science and Technology, in press

Y Liu, Z Wang, and X Liu, "Global Exponential Stability of Generalized Recurrent Neural Networks with Discrete and Distributed Delays", Neural Networks, in press.

W Sheng, S Swift, L Zhang and X Liu, "A Weighted Sum Validity Function for Clustering With a Hybrid Niching Genetic Algorithm", IEEE Transactions on Systems, Man and Cybernetics - Part B, 35:1156-1167, 2005.

Z Wang, D Ho and X Liu, "State Estimation for Delayed Neural Networks", IEEE Transactions on Neural Networks, 16:279-284, (2005)

Z Wang, Y Liu and X Liu, "On Global Asymptotic Stability of Neural Networks with Discrete and Distributed Delays", Physics Letters A, 345:299-308, 2005.
S Chen, and X Liu, "The Contribution of Data Mining to Information Science", Journal of Information Science 30:550-558, (2004).

S Lauria, G Bugman, T Kyriacou, and E Klein, "Mobile Robot Programming Using Natural Language", Robotics and Autonomous Systems, 38 (3-4), (2002)

X Liu, G Cheng and J Wu, "Analysing Outliers Cautiously", IEEE Transactions on Knowledge and Data Engineering, 14:432-437, (2002).

S Lauria, G Bugman, T Kyriacou, J Bos, and E Klein, "Personal Robot Training Via Natural Language Instructions", IEEE Intelligent Systems 16(4):38-46, (2001).

S Swift, A Tucker, N Martin and X Liu, "Grouping Multivariate Time Series Variables: Applications to Chemical Process and Visual Field Data", Knowledge-Based Systems, 14, 147-154, (2001)

A Tucker, X Liu and A Ogden-Swift, "Evolutionary Learning of Dynamic Probabilistic Models with Large Time Lags", International Journal of Intelligent Systems, 16:621-645, (2001).

H Dettmar, X Liu, R Johnson and A Payne, "Knowledge-Based Data Generation", Knowledge-Based Systems, 11(3-4):167-77, (1998).

M Berthold, P Cohen and X Liu, "Intelligent Data Analysis: Reasoning about Data", AI Magazine, 19(4):131-4, (1998).

Dynamics, Signals and Time Series

This research theme is concerned with the analysis and synthesis of dynamical behaviours for a variety of complex systems in signal processing and multivariate time series with promising applications to bioinformatics, robotics and communications. Research topics include, but not limited to, modelling, analysing, filtering, transmitting, estimating, detecting, synthesising and reproducing multivariate dynamics (signals or time series) by integrating the latest techniques from mathematics, statistics, dynamical systems, and computationally intelligent methods.

Selected Publications

Z Wang, F Yang, D Ho and X Liu, "Robust H-infinity filtering for stochastic time-delay systems with missing measurements", IEEE Transactions on Signal Processing, in press.

S Swift, J Kok, and X Liu, "Learning Short Multivariate Time Series Models through Evolutionary and Sparse Matrix Computation", Natural Computing, in press

Y Liu, Z Wang and X Liu, "Global Asymptotic Stability of Generalized Bi-Directional Associative Memory Networks with Discrete and Distributed Delays", Chaos, Solitons and Fractals, 28(3):793-803, (2006)

F Yang, Z Wang, D Ho and X Liu, "Robust H-2 Filtering for A Class of Systems with Stochastic Nonlinearities", IEEE Transactions on Circuits and Systems - Part II, 53:235-239, 2006.
A Tucker and X Liu, "A Bayesian Network Approach to Explaining Time Series with Changing Structure", Intelligent Data Analysis, 8:469-480, (2004)

Z Wang, J Lam, and X Liu, "Exponential Filtering for Uncertain Markovian Jump Time-Delay Systems with Nonlinear Disturbances", IEEE Transactions on Circuits and Systems - Part II; 51:262-268, (2004).

Z Wang and X Liu, "On Designing H-infinity Filters with Circular Pole and Error Variance Constraints", IEEE Transactions on Circuits and Systems II, 50:139-43, (2003)

Z Wang, D Ho and X Liu, "Variance-Constrained Filtering for Uncertain Stochastic Systems with Missing Measurements", IEEE Transactions on Automatic Control, 48, 1254-1258, (2003)

Z Wang, J Lam and X Liu, "Nonlinear Filtering for State Delayed Systems with Markovian Switching", IEEE Transactions on Signal Processing, 51, 2321-2328, (2003)

Z Wang and H Qiao, "Robust filtering for bilinear uncertain stochastic discrete-time systems", IEEE Transactions on Signal Processing, 50:560-567, (2002).

Z Wang, J Lam and K J Burnham, "Stability analysis and observer design for neutral delay systems", IEEE Transactions on Automatic Control, 47:478-483. (2002).

Z Wang and F Yang, "Robust filtering for uncertain linear systems with delayed states and outputs", IEEE Transactions on Circuits and Systems I, 49:125-130, (2002)

A Tucker, S Swift and X Liu, "Variable Grouping in Multivariate Time Series via Correlation", IEEE Transactions on Systems, Man & Cybernetics: Part B: Cybernetics, 31:235-245, (2001).

Z Wang, B Huang and K Burnham, "Stochastic reliable control of a class of uncertain time-delay systems with unknown nonlinearities", IEEE Transactions on Circuits and Systems I, 48:646-650, (2001)

A Tucker, X Liu and A Ogden-Swift, "Evolutionary Learning of Dynamic Probabilistic Models with Large Time Lags", International Journal of Intelligent Systems, 16:621-645, (2001).

Z Wang and K Burnham, "Robust filtering for a class of stochastic uncertain nonlinear time-delay systems via exponential state estimation", IEEE Transactions on Signal Processing, 49:794-804, (2001).

Visual Computing

This research theme is concerned with the study of broad areas of computer vision, graphics and visualisation. Current research include the following: human centered video analysis (including dynamic face recognition, gesture recognition and visual context computing), sport video annotation, video surveillance, road sign recognition, texture synthesis, non-photorealistic rendering, image inpainting, and amplifiable bi-directional texture functions for 3D high fidelity images.

Selected Publications

F Dong, and G Clapworthy, "Volumetric Texture Synthesis for Non-Photorealistic Volume Rendering of Medical Data", The Visual Computer, 21 (7) : 463-472, (2005)
P O'Neill, K Fraser, Z Wang, P Kellam, J Kok, and X Liu, "Pyramidic Clustering of Large Scale Microarray Images", The Computer Journal, 48:466-479, 2005.

F Dong, G Clapworthy, H Lin, "Cutting and Pasting Irregularly-Shaped Patches for Texture Synthesis", Computer Graphics Forum, 24(1): 17-26, 2005.

Y Li, "On incremental and robust subspace learning", Pattern Recognition, 37: 1509-1518, (2004).

Y Li, S Gong, J Sherrah and H Liddell, "Support Vector Machine based multi-view face detection and recognition", Image and Vision Computing, 22:413-427, (2004).

K Fraser, P O'Neill, Z Wang and X Liu, "Copasetic Analysis: A Framework for the Blind Analysis of Microarray Imagery", Systems Biology, 1:190-196, (2004).

F Dong, G Clapworthy, H Lin, M Krokos, "Volumetric Hatching: Illustration of Medical Volume Data Using Line Strokes", IEEE Computer Graphics and Applications, 23(4):44-52, 2003.

Y Li, S Gong and H Liddell, "Constructing facial identity surfaces for recognition", International Journal of Computer Vision, 53:71-92, (2003).

Y Li, S Gong and H Liddell, "Recognising trajectories of facial identities using Kernel Discriminant Analysis", Image and Vision Computing, 21:1077-1086, (2003).

P O'Neill, G Magoulas, and X Liu, "Improved Processing of Microarray Data using Image Reconstruction", IEEE Transactions on Nanobioscience, 2(4), 176-183, (2003)

F Dong, G Clapworthy, M Krokos, J Yao, "An Anatomy-Based Approach to Human Muscle Modeling and Deformation", IEEE Trans. on Visualization and Computer Graphics, 8(2):154-170, 2002