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Alina Sîrbu Centre for scientific computing and complex systems modelling LG01, School of Computing Dublin City University Glasnevin, Dublin 9 Ireland Tel: (+353)1 700 6747 Email: asirbu@computing.dcu.ieResearch interests
Machine learning, complex systems modelling, data mining, evolutionary algorithms, artificial neural networks, agent based modelling, gene regulatory networks, epigenetics, bioinformatics.Current project
Publications
- Sîrbu, A., Ruskin, H. J. and Crane, M. (2011). Stages of Gene Regulatory Network Inference: the Evolutionary Algorithm Role, Evolutionary Algorithms, INTECH, In press.
- Sîrbu, A., Ruskin, H. J. and Crane, M. (2010). Regulatory network modelling: Correlation for structure and parameter optimisation, In Proceedings of The IASTED International Conference on Computational Bioscience, Cambridge, Massachusetts, 1-3 Nov, In press.
- Sîrbu, A., Ruskin, H. J. and Crane, M. (2010). Comparison of evolutionary algorithms in gene regulatory network model inference, BMC Bioinformatics 11(59).
- Sîrbu, A., Ruskin, H. J. and Crane, M. (2010). Cross-platform microarray data normalisation for regulatory network inference, PLoS ONE 5(11): e13822.
- Sîrbu A., Ruskin H.J. and Crane M. (2010) Modelling Gene Regulatory Networks - An Integrative Approach, ERCIM News, 81(36-37), Special Issue: Computational Science/Scientific Computing. Simulation and Modelling for Research and Industry.
Conferences
- Sîrbu, A., Ruskin, H. J. and Crane, M. Regulatory network modelling: Correlation for structure and parameter optimisation, IASTED International Conference on Computational Bioscience, Cambridge, Massachusetts, 1-3 Nov, 2010, (Presentation).
- Sîrbu, A., Ruskin, H. J. and Crane, M. Integrating heterogeneous gene expression data for gene regulatory network modelling, European Conference on Complex Systems, Lisbon, Portugal, 13- 17 Sept, 2010, (Presentation).
- Sîrbu, A., Ruskin, H.J. and Crane, M. Integrating Heterogeneous Microarray Data for Regulatory Network modelling, Advances in Microarray Technology, May 2010, Dublin, (Presentation).
- Sîrbu, A., Ruskin, H.J. and Crane, M. Wavelets for analysis of time series gene expression data, 2nd COST Action MP0801 Physics of Competition and Conflicts, May 2010, Bulgaria, (Poster presentation).
- Sîrbu, A., Ruskin, H.J. and Crane, M. Modelling Gene Regulatory Networks: an Integrative Approach, 2nd COST Action MP0801 Physics of Competition and Conflicts, May 2010, Bulgaria, (Presentation).
- Sîrbu, A., Ruskin, H.J. and Crane, M. Modelling Gene Regulatory Networks with Evolutionary Algorithms, Faculty of Engineering and Computing Research Day, May, 2010 (Presentation, awarded with the Overall 1st Place prize).
- Sîrbu, A., Ruskin, H.J. and Crane, M. Integrating heterogeneous Gene Expression data for Regulatory Network modelling, VIBE, January 2010, Dublin, (Poster presentation).
- Sîrbu, A., Ruskin, H.J. and Crane, M. Evolutionary algorithms in genetic regulatory network modelling with microarray data, The 9th Asia-Pacific Complex Systems Conference (Complex'09), Tokyo, Japan, November 4-7, 2009, (Presentation).
- Globe Forum: Smarter & Greener Innovation for a Sustainable Future, Dublin, Ireland, November 2010
- IRCSET Symposium Innovation fuelling the Smart Society, Dublin, Ireland, September 2009 6th Symposium for Networks in Bioinformatics, Amsterdam University, Netherlands, April 2009
2010-2011
First semester:
CA591/598 Object-oriented programming with Java R short introduction R stats packageSecond semester:
CA218 Introduction to databases2009-2010
First semester:
CA591/598 Object-oriented programming with JavaSecond semester:
CA218 Introduction to databases
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Academic Experience
Dublin City University, Oct 2008 - present
Centre for Scientific Computing and Complex Systems Modelling, School of Computing
PhD Student
Ongoing research in the field of Computational Biology, focusing on gene regulatory network model inference from integrated biological data. See research page for more information on the project and a publication list. Work funded under the IRCSET Embark scheme.Tutoring activities
Tutorials and laboratories within the School of Computing for several modules, both at undergraduate and masters level, starting with academic year 2009-2010. Please see teaching page for details on modules tutored.Peer review activities
2010-2011 - Reviews performed for papers in BMC Bioinformatics and IEEE Transactions on Neural Networks.Education
PhD degree (expected 2011), Dublin City University, Ireland, Oct 2008 - present
Centre for Scientific Computing and Complex Systems Modelling, School of Computing
Funded under the IRCSET Embark scheme 2008. Project title: "Gene regulatory network modelling with evolutionary algorithms: an integrative approach". Please see research page for more information and publication list.
BSc degree, 'A.I. Cuza' University, Iasi, Romania, Oct 2004 - June 2008
Faculty of Computer Science
Thesis title: "GriW: application for visualisation of grid systems". Relevant modules studied: Machine Learning, Bioinformatics, Evolutionary Algorithms, Artificial Neural Networks, Probability and Statistics, Graph Theory, Artificial Intelligence, Software Engineering, Programming (C/C++, Java, C#, Haskel, Lisp), Databases, Coding Theory and Cryptography, Computer Networks.
Centre for Scientific Computing and Complex Systems Modelling
Modelling and Scientific Computing Group
Dublin City University
Irish Research Council for Science, Engineering and Technology
Irish Centre for High-End Computing
DREAM project