Journal publications

(Sykacek et al. 2011)
P. Sykacek, D. P. Kreil, L. A. Meadows, R. P. Auburn, S. Russell and G. Micklem, The impact of quantitative optimization of hybridization conditions on gene expression analysis. In BMC Bioinformatics, 12:73, doi:10.1186/1471-2105-12-73. This article is open access.
(Posekany et al. 2011)
A. Posekany, K. Felsenstein and P. Sykacek, Biological assessment of robust noise models in microarray data analysis. In Bioinformatics, 27(6), pp. 807-814, doi: 10.1093/bioinformatics/btr018. This article is open access.
(Minois et al. 2010)
N. Minois, P. Sykacek, B. Godsey, D. P. Kreil, RNA Interference in Ageing Research - A Mini-Review. In Gerontology, doi:10.1159/000277626. An abstract is available online.
(Furlong et al. 2009)
R. Furlong, C-w., Cheng, P. Sykacek, T. Morris, D. Licence, N. Affara and D. S. Charnock-Jones, Comparison of Transcript Profiles from a Mouse Model of Decidualisation and the Estrous Cycle Using a Bayesian Model of Shared Gene Function. In Reproductive Sciences, 2009, Vol. 16. No. 3 Suppl. S, pp 1014.
(Leparc et al. 2009)
G. G. Leparc, T. Tüchler, G. Striedner, K. Bayer, P. Sykacek I. L. Hofacker and D. P. Kreil, Model-based pobe set optimization for high-performance microarrays. In Nucleic Acids Research, 2009, Vol. 37, No. 3 e18; doi:10.1093/nar/gkn1001. A pdf is available online.
(Szakasits et al. 2009)
D. Szakasits, P. Heinen, K. Wieczorek, J. Hofmann, F. Wagner, D. P. Kreil, P. Sykacek, F. M. W. Grundler and H. Bohlmann, The transcriptome of syncytia induced by the cyst nematode Heterodera schachtii in Arabidopsis roots. In The Plant Journal, 2009; pp 771--784. A pdf is available online.
(Sykacek et al.. 2007a)
P. Sykacek, R. Clarkson, C. Print, R. Furlong and G. Micklem, Bayesian Modeling of Shared Gene Function. In Bioinformatics, 2007; doi: 10.1093/bioinformatics/btm280, pp 1936--1944. An abstract and a pdf preprint are available from Bioinformatics online, a local draft version is available in gziped postscript and pdf.
(Anderson et al. 2007)
L. Anderson, R. M. Burnstein, X. He, R. Luce, R. Furlong, T. Foltynie, P. Sykacek, D. K. Menon and Maeve A. Caldwell, Gene expression changes in long term expanded human neural progenitor cells passaged by chopping leads to loss of neurogenic potential in vivo. In Experimental Neurology, Volume 204, Issue 2, April 2007, Pages 512-524; doi:10.1016/j.expneurol.2006.12.025. online version.
(Sykacek et al. 2005)
P. Sykacek, R. Furlong and G. Micklem, A Friendly Statistics Package for Microarray Analysis. In Bioinformatics, 21(21). 4096-4070, 2005. Draft available in pdf and as gziped postscript. An abstract and a pdf file are available from Bioinformatics online access.
(Sykacek et al. 2004)
P. Sykacek, S. J. Roberts and M. Stokes, Adaptive BCI based on variational Bayesian Kalman filtering: an empirical evaluation. In IEEE Trans. Biomedical Engineering, 51(5):719--727, 2004.
(Mukherjee et al. 2004)
S.N. Mukherjee, P. Sykacek, S.J. Roberts and S.J. Gurr, Gene Ranking Using Bootstrapped P-values. In ACM SIGKDD Explorations, Volume 5, Issue 2, Special Issue on Microarray Data Mining, 2004.
(Curran et al. 2004)
E. Curran, P. Sykacek, M. Stokes, S. J. Roberts, W. Penny, I. Johnsrude and A. M. Owen, Cognitive tasks for driving a Brain Compute Interfacing System. In IEEE Trans. Neural Systems and Rehabilitation Engineering, 12 (1): 48-57, 2004.
(Sykacek et al. 2003)
P. Sykacek, S. J. Roberts, M. Stokes, E. Curran, M. Gibbs and L. Pickup, Probabilistic methods in BCI research. In IEEE Trans. Neural Systems and Rehabilitation Engineering, pp. 192--195, 2003.
(Sykacek et al. 2002 a)
P. Sykacek, G. Dorffner, P. Rappelsberger and J. Zeitlhofer, Improving biosignal processing through modelling uncertainty: Bayes vs. non-Bayes in sleep staging. In Applied Artificial Intelligence, 16(5):395-421,2002.
(Flexer et al. 2002)
A. Flexer, G. Dorffner, P. Sykacek, I. Rezek, An automatic, continuous and probabilistic sleep stager based on a hidden Markov model. In Applied Artificial Intelligence, 16(3):199-207,2002.
(Rappelsberger et al. 2001)
Rappelsberger P., Trenker E., Rothman C., Gruber G., Sykacek P., Roberts S., Klösch G., Zeitlhofer J., Anderer P., Saletu B., Schlögl A., Värri A., Kemp B., Penzel T., Herrmann WM., Hasan J., Barbanoj MJ., Kunz D., Dorffner G. Das Projekt SIESTA. In Klinische Neurophysiologie,32(2): pages 76-88, 2001. (in German).
(Rezek et al. 2000 b)
I. Rezek, P. Sykacek and S. Roberts, Learning interaction dynamics with coupled hidden Markov models. In IEE special issue proceedings science measurement and technology, Vol. 147(5), pages 345-350, 2000.
(Dorffner et al. 2000)
G. Dorffner, P. Sykacek, S. Roberts, A. Schlögl, A. Värri, P. Rappelsberger, P. Anderer, G. Klösch, B. Saletu, MJ. Barbanoj, W. Herrmann, S.-L. Himanen, B. Kemp, T. Penzel, J. Röschke, Continuous sleep processes and subjective sleep quality - first results from the SIESTA project. In J. Sleep Res Supplement 1., page 55, 2000.
(Kemp et al. 1998)
Kemp B, Penzel T, Värri A. O., Sykacek P., Roberts S. J. and Nielsen K. D, EDF: a simple format for graphical analysis results from polygraphic SIESTA recordings. In J. Sleep Research 7, suppl. 2, page 132, 1998.

Peer reviewed publications in conferences and book chapters

(Sykacek et al. 2004 b)
P. Sykacek, I. Rezek and S. J. Roberts, Bayes Consistent Classification of EEG Data by Approximate Marginalisation. In D. Husmeier and R. Dybowski and S. J. Roberts editors. Probabilistic Modeling in Bioinformatics and Medical Informatics, pages 391--416, Springer Verlag, London, 2004.
(Sykacek & Roberts 2003)
P. Sykacek and S. J. Roberts, Adaptive classification by variational Kalman filtering. In S.Thrun, S. Becker and K. Obermayer, editors, Advances in Neural Information Processing Systems 15, pp 737-744, MIT press, 2003. Draft available in pdf or gziped postscript.
(Rezek et al. 2003)
I. Rezek, S. J. Roberts and P. Sykacek, Ensemble Coupled Hidden Markov Models for Joint Characterisation of Dynamic Signals. In Proceedings of the Ninth International Workshop on Artificial Intelligence and Statistics 2003. Draft available in gziped postscript.
(Sykacek & Roberts 2002)
P. Sykacek and S. J. Roberts, Bayesian time series classification. In T. G. Dietterich, S. Becker and Z. Ghahramani, editors, Advances in Neural Information Processing Systems 14, pages 937-944, MIT press, 2002. draft available in pdf or gziped postscript.
(Sykacek et al. 2001)
P. Sykacek, S. J. Roberts, I. Rezek, A. Flexer and G. Dorffner, A probabilistic approach to high resolution sleep analysis. In G. Dorffner, K. Hornik and H. Bischof, editors, Proceedings of the International Conference on Neural Networks (ICANN), pages 617-624, Springer Verlag, 2001. draft available in pdf or gziped postscript.
(Dorffner et al. 2000)
G. Dorffner, P. Sykacek and C. Schittenkopf, Modelling Uncertainty in Biomedical Applications of Neural Networks. In Proceedings of Artificial Neural Networks in Medicine and Biology 1, Göteborg, Sweden, pages 18-26, Springer Verlag, 2000.
(Flexer et al. 2000)
A. Flexer, P. Sykacek, I. Rezek and G. Dorffner, Using hidden Markov models to build an automatic, continuous and probabilistic stager. In S. I. Amari et al., Proceedings of the IEEE-INNS-ENNS International Joint Conference on Neural Networks, IJCNN 2000, Como Italy, IEEE Computer Society, Vol. III, 627-631, 2000.
(Rezek et al. 2000 a)
I. Rezek, P. Sykacek and S. Roberts, Coupled hidden Markov models for biosignal interaction modelling. In Proceedings of Medsip-2000, International Conference on Advances in Medical Signal and Information Processing, pages 672-679, 2000.
(Sykacek 2000b)
P. Sykacek, On input selection with reversible jump Markov chain Monte Carlo sampling. In S. A. Solla and T. K. Leen and K. R. Müller editors, Advances in Neural Information Processing Systems 12, pages 638-644, MIT press, 2000. draft available in pdf or gziped postscript.
(Sykacek et al. 1999 c)
P. Sykacek, S. J. Roberts, I. Rezek, A. Flexer and G. Dorffner, Bayesian wrappers versus conventional filters: Feature subset selection in the Siesta project. In Proceedings of the European Medical & Biomedical Engineering Conference, pages 1652-1653, 1999. draft available in pdf or gziped postscript.
(Sykacek et al. 1999 b)
P. Sykacek, S. J. Roberts, I. Rezek, A. Flexer and G. Dorffner, Reliability in preprocessing: Bayes rules Siesta. In Proceedings of the European Medical & Biomedical Engineering Conference, pages 1656--1657, 1999. draft available in pdf or gziped postscript.
(Sykacek et al. 1999 a)
P. Sykacek, S. J. Roberts, I. Rezek, A. Flexer and G. Dorffner, Classification in the sampling paradigm: A predictive approach towards a Siesta sleep analyzer. In Proceedings of the European Medical & Biomedical Engineering Conference, pages 1660-1661, 1999. draft available in pdf or gziped postscript.
(Sykacek 1998)
P. Sykacek, Outliers and Bayesian Inference. In M. Heiss editor, Proceedings of NC 98 Vienna, pages 973-978, 1998. wins best presentation award. draft available in pdf or gziped postscript.
(Cristianini et al. 1998)
N. Cristianini, J. Shawe-Taylor and P. Sykacek, Bayesian Classifiers are Large Margin Hyperplanes in a Hilbert Space. In Proceedings of the ICML 98, pages 109-117, 1998.
(Sykacek et al. 1998)
P. Sykacek, G. Dorffner, P. Rappelsberger and J. Zeitlhofer, Experiences with Bayesian learning in a real world application. In M. I. Jordan and M.J. Kearns and S. Solla editors, Advances in Neural Information Processing Systems 10, pages 964-970, 1998.
(Sykacek 1997)
P. Sykacek, Equivalent error bars for neural network classifiers trained by Bayesian inference. In Proceedings of the European Symposium on Artificial Neural Networks (Bruges, 1997), pages 121-126, 1997.
(Sykacek et al. 1997)
P. Sykacek, G. Dorffner, O. Filz, P. Rappelsberger and J. Zeitlhofer, Classification of REM sleep periods with artificial neural networks. In Proc. of Measurement '97, (Smolenice, 1997), pages 327-333, 1997.

Talks, posters, TR's, theses and unreviewed journal contributions

(Sykacek 2007 c)
P. Sykacek, Bayesian Modeling and Systems Biology. Presented at the RICAM Workshop on Systems Biology, RICAM, Linz, 2007. Handouts of this presentation are available in pdf.
(Sykacek 2007 b)
P. Sykacek, Bayesian Modeling of Shared Gene Function. Presented at the GENAU Ultra-Sensitive Proteomics \& Genomics summerschool 2007, Litschau 2007. (joint work with R. Clarkson, C. Print, R. Furlong and G. Micklem.) Slides of this presentation are available from the workshop homepage.
(Sykacek 2007 a)
P. Sykacek, Hierarchical Bayesian Modeling Identifies Shared Gene Function. Presented at the ISMB-ECCB 07 affiliated post conference workshop on Probabilistic Modelling in Computational Biology, PMCB07, Vienna 2007. (joint work with R. Clarkson, C. Print, R. Furlong and G. Micklem.) Slides of this presentation are available from the workshop homepage.
(Sykacek et al. 2007 b)
P. Sykacek, R. Clarkson, C. Print, R. Furlong and G. Micklem, Bayesian Modeling of Shared Gene Function. Technical report, Dept. of Biotechnology, BOKU University, Vienna, 2007. Report available in pdf and gziped postscript.
(Sykacek 2006)
P. Sykacek, Quantitative Modeling in Systems Biology, Part II: Probabilistic Models. Presentation in the VSCB Computational Biology Research Seminar, BOKU Vienna, 2006. Abstract available at the seminar homepage.
(Sykacek and Micklem 2005 b)
P. Sykacek and G. Micklem. Hierarchical Bayesian Modelling Identifies Shared Gene Function (biologists version). Presented at the Annual Research at Genetics Meeting, December 2005, Cambridge UK. Presentation available in pdf.
(Sykacek and Micklem 2005 a)
P. Sykacek and G. Micklem, Hierarchical Bayesian Modelling Identifies Shared Gene Function (technical version). Presented at Birbeck College's Bioinformatics Seminar, November 2005, London UK, talk available in pdf.
(Sykacek 2005)
P. Sykacek. A short FSPMA tutorial. available in pdf and as gziped postscript.
(Sykacek 2004 b)
P. Sykacek, Probabilistic Methods in BCI Research. Presented at Birmingham Universities Computer Science Seminar, November 2004, Birmingham UK. Presentation available in pdf.
(Sykacek and Clarkson 2004)
P. Sykacek and R. Clarkson, Probabilistic Modeling for Multi Systems Microarray Experiments. Presented at the BBSRC's Exploiting Genomics Initiative Grant Holder Meeting, October 2004, Windsor UK. Technical part available in pdf.
(Sykacek 2004 a)
P. Sykacek, Biomedical Applications and the Probabilistic Framework. Presented at David MacKay's Inference Group Seminar, Feb. 2004, Cambridge UK. Presentation available in pdf.
(Sykacek 2003 b)
P. Sykacek, Brain Computer Interfacing: State of the Art, Probabilistic Advances and Future Perspectives. Technical Report, available in pdf and as gziped postscript.
(Sykacek 2003 a)
P. Sykacek, Towards Adaptive BCI. Presentation at the NCAF meeting on human computer interaction, 3-4 September 2003, Cambridge, UK.
(Sykacek et al. 2002 b)
P. Sykacek, S. J. Roberts and M. Stokes, Adaptive BCI based on variational Bayes: an empirical evaluation. Poster presented and awarded in the "best engineering" category at the BCI workshop 2002 in Albany, NY, June 12-17.
(Sykacek 2001)
P. Sykacek, Markov Chain Monte Carlo Methods and EEG Analysis. Presentation at the ICANN 2001 post conference workshop on Advances in EEG Analysis, Vienna, 2001. An abstract is available at the workshop homepage.
(Sykacek 2000 a)
P. Sykacek, Bayesian inference for reliable biomedical signal processing. PhD. thesis at the Technical University Vienna, June 2000. available in pdf or gziped postscript.
(Sykacek and Dorffner 1999)
P. Sykacek and G. Dorffner, Biosignalverarbeitung mit Bayes'schen Methoden. In ÖGAI Journal, 18(3),18-24, 1999. (in German).
(Sykacek 1999)
P. Sykacek, Learning from uncertain and probably missing data. Presented at the NIPS 99 post conference workshop on Using unlabelled data for supervised learning. An abstract is available on the workshop homepage, 1999.
(Sykacek 1999)
P. Sykacek, Metalevel learning - is more than model selection necessary? In Proceedings of the ICML 99 Workshop on Recent Advances in Meta-Learning and Future Work, pages 66-73, 1999.
(Sykacek & Weissgärber 1995)
P. Sykacek and R. Weissgärber, Parameteroptimierung für Fuzzy Controller. In Konferenzbeitrag Mikroelektronik 1995, ÖVE Schriftenreihe Nr.8, September 1995. (in German).
(Sykacek 1995)
P. Sykacek, Parameteroptimierung für Fuzzy Controller. Diploma Thesis, ICT TU-Vienna, 1995. (in German).