Who am I and what am I doing here?

Allan TuckerA brief introduction to my research

www.brunel.ac.uk\~cssrajt

Outline of talk

My backgroundMy current research and collaborationsA sample of results and publicationsPlan of future research and fundingConclusions

A bit of background

BSc Cognitive Science:University of Sheffield, 1996PhD Computer Science:University of London, 2001Post doctorate research:Brunel University, 2001-2004

IDA group at Brunel

Headed by Professor Liu Bioinformatics, Genomics, and Medical

Informatics Data Mining and Intelligent Systems Dynamic Systems and Signal

Processing Graphics, Images and Visualisation Multivariate Time Series and Statistical

Analysis

Areas of interest

Bayesian networks Automatic explanation of dataMultivariate time seriesClassificationOptimisation

Collaborations

Moorfield’s eye hospital Visual field understanding and classification

UCL, Department of virology Gene expression data

Royal Holloway Optimisation

Brunel University Within IDA Software engineering

One slide tutorial on Bayesian networks

Graph structureLocal probability distributionsCombine expert knowledge and data (but little research on this)

Alarm

Mary Calls John Calls

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Burglary Earthquake

Some resultsSpatio-temporal models of visual fields Artificial intelligence in medicine, 2004

Some results (continued)Predicting Glaucoma

Some results (continued)

Explanation Intelligent Data Analysis, 2002 & 2004

Some results (continued)

Combining expert knowledge and data to identify relevant genes Bioinformatics, under review

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Journal PublicationsTucker, A. Crampton, J. Swift, S. “RGFGA: An Efficient Representation and Crossover for Grouping Genetic Algorithms” Evolutionary Computation, Provisionally Accepted.Tucker, A. Vinciotti, V. Liu, X. Garway-Heath, D. “A Spatio-Temporal Bayesian Network Classifier for Understanding Visual Field Deterioration”, Artificial Intelligence in Medicine, Elsevier, In Press.Swift, S. Tucker, A. Liu, X. Martin, N. Orengo, C. Kellam, P. “Consensus Clustering and Functional Interpretation of Gene Expression Data”, Genome Biology, In Press.Tucker, A. Vinciotti, V. Liu, X. “The Robust Selection of Predictive Genes Via a Simple Classier”, Submitted to Bioinformatics.Tucker, A and Liu, X “A Bayesian Network Approach to Explaining Time Series with Changing Structure”, Intelligent Data Analysis – An International Journal, In Press.Kellam, P. Liu, X. Martin, N. Orengo, C. Swift, S. Tucker, A. “A Framework for Modelling Virus Gene Expression Data”, Intelligent Data Analysis, 2002.Counsell, S. Liu, X. Mcfall, J. Swift, S. Tucker, A “Using Evolutionary Computation for Clustering Email Data”, Intelligent Data Analysis, 2002.Tucker, A. Liu, X. Ogden-Swift, A. “Evolutionary learning of dynamic probabilistic models with large time lags”, International Journal of Intelligent Systems, 2001.Swift, S. Tucker, A. Martin, N. Liu X. “Grouping Multivariate Time Series Variables: Applications to Chemical process and Visual Field Data”, Knowledge Based Systems, 2001.Tucker, A. Swift, S. Liu, X. “Grouping Multivariate Time Series via Correlation”, IEEE Transactions on Systems, Man, and Cybernetics. Part B: Cybernetics, 2001.

Recent Conference Publications

Vinciotti, V. Tucker, A. Liu, X. Panteris, E. Kellam, P. “Identifying genes with high confidence from small samples”, Workshop on Data Mining in Functional Genomics, at the European Conference in Artificial Intelligence ECAI 2004.Sheng, W. Tucker, A. Liu, X. “Clustering with Niching Genetic K-means Algorithm”, GECCO 2004.Tucker, A. Vinciotti, V. Liu, X. Garway-Heath, D. “Bayesian Networks to Classify Visual Field Data”, The Association for Research in Vision and Ophthalmology Annual Conference, ARVO 2004.Tucker, A. Garway-Heath, D. Liu, X. “Bayesian Classification and Forecasting of Visual Field Deterioration”, Proceedings of IDAMAP 2003.Counsell, S., Liu, X., Najjar, R., Swift, S., Tucker, A., “Applying Intelligent Data Analysis to Coupling Relationships in Object-oriented Software”, IDA 2003.Tucker, A. Liu, X. “Learning Dynamic Bayesian Networks from Multivariate Time Series with Changing Dependencies”, IDA 2003.Tucker, A. Garway-Heath, D. Liu, X. “Spatial Operators for Evolving Dynamic Probabilistic Networks from Spatio-Temporal Data”, GECCO 2003.Counsell, S. Liu, X. McFall, J. Swift, S. and Tucker, A. “Optimising the Grouping of Email Users to Serves Using Intelligent Data Analysis”, ICEIS 2001.Kellam, P. Liu, X. Martin, N. Orengo, C. Swift, S. Tucker, A. “A Framework for Modelling Short, High-Dimensional Multivariate Time Series: Preliminary Results in Virus Gene Expression Data Analysis”, IDA 2001.Tucker, A. Swift, S. Martin, N. Liu X. “Grouping Multivariate Time Series Variables: Applications to Chemical process and Visual Field Data”, ES 2000.

Future directions

Continue existing research collaborations Bioinformatics – HIV data, Gene identification Software Engineering – Analysis of code Optimisation – adaptive parameters, representations Recently secured funding from Zeis Meditech in

conjunction with Moorfield’s to generate substantial data on visual fields and retinal images

EPSRC first grant Optimisation with adaptive parameters

BBSRC new investigation scheme Combining databases (GO ENSEMBL) into coherent

models of the human genomeEPSRC advanced fellowship?

Summary

Record of working within Brunel over 4 yearsMultiple projects and collaborations with a number of institutionsGood publication record including several “grade A” journalsKeen to build upon my research record

Thanks for listening

Any questions?

Some resultsClustering (MTS and Consensus) IEEE System Man & Cybernetics, 2001 Genome Biology, 2004

Some results (continued)

Efficient representations for GAs International Journal of Intelligent Systems,

2001 Evolutionary computation, provisionally

accepted

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