Project Papers
A list of papers generated by the project is shown below.
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An artificial immune system for clustering amino acids in the context of protein function classification.
Andrew Secker, Matthew N. Davies, Alex A. Freitas, Jon Timmis, Edward Clark and Darren R. Flower
(2008). Journal of Mathematical Modelling and Algorithms (2009), 8: pp. 103-123
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Hierarchical classification of G-protein-coupled receptors with data-driven selection of attributes and classifiers.
Andrew Secker, Matthew N. Davies, Alex A. Freitas, Edward Clark, Jon Timmis and Darren R. Flower
(2009). To appear in International Journal of Data Mining and Bioinformatics
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Optimizing amino acid groupings for GPCR Classification.
Matthew N. Davies, Andrew Secker, Alex A. Freitas, Edward Clark, Jon Timmis and Darren R. Flower
(2008). Bioinformatics 24(18): pp. 1980-1986, Oxford Journals
Link to abstract
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Alignment-independent techniques for protein classification.
Matthew N. Davies, Andrew Secker, Alex A. Freitas, Edward Clark, Jon Timmis and Darren R. Flower
(2008). Current Proteomics 5(4): pp. 217-223, Bentham Science
Link to abstract
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GPCRTree: Online Hierarchical Classification of GPCR Function.
Matthew N. Davies, Andrew Secker, Mark Halling-Brown, David S. Moss, Alex A. Freitas, Edward Clark, Jon Timmis and Darren R. Flower
(2008). BMC Research Notes Vol 1:67, 5 pages
Link to abstract
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An Artificial Immune System for Evolving Amino Acid Clusters Tailored to Protein Function Prediction.
Andrew Secker, Matthew N. Davies, Alex A. Freitas, Jon Timmis, Edward Clark and Darren R. Flower.
(2008). Lecture Notes in Computer Science vol. 5132 (Proc. 2008 Int. Conf. on Artificial Immune Systems (ICARIS-2008)). pp 242-253. Springer.
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On the hierarchical classification of G Protein-Coupled Receptors.
Matthew N. Davies, Andrew Secker, Alex A. Freitas, Miguel Mendao, Jon Timmis and Darren R. Flower.
(2007) Bioinformatics 23(23), December 2007: pp. 3113-3118, Oxford Journals.
Link to abstract
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An Experimental Comparison of Classification Algorithms for the Hierarchical Prediction of Protein Function.
Andrew Secker, Matthew N. Davies, Alex A. Freitas, Jon Timmis, Miguel Mendao and Darren R. Flower
(2007).
Expert Update (Magazine of the British Computer Society's Specialist Group on AI), Special Issue on
the 3rd UK KDD (Knowledge Discovery and Data Mining) Symposium 9(3), Autumn 2007, pp. 17-22. ISSN: 1465-4091.
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Proteomic applications of automated GPCR classification
. Matthew N. Davies, David E. Gloriam, Andrew Secker, Alex A. Freitas, Miguel Mendao, Jon Timmis and Darren R.
Flower (2007). Proteomics, 7(16), pp. 2800-2814. Wiley.
Link to abstract
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The Immune System in Pieces: Computational Lessons from Degeneracy in the Immune System.
(2007), IEEE Symposium on Foundations of Computational Intelligence (FOCI'07), pp. 394-400. Honolulu, Hawaii, USA.
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