ProCKSI

= Papers =

== 2008 ==

M.T. Oakley, D. Barthel, Y. Bykov, J.M. Garibaldi, E.K. Burke, N. Krasnogor, and J.D. Hirst [[br]]

'''Search Strategies in Structural Bioinformatics'''[[br]]

''Current Protein and Peptide Science'', 2008 (to appear)

A.A. Shah, D. Barthel, P. Łukasiak, J. Błażewicz, and N. Krasnogor ([http://www.ingentaconnect.com/search/article?title=web+and+grid&title_type=tka&author=Krasnogor&journal=current+bioinformatics&journal_type=words&volume=3&issue=1&year_from=2003&year_to=2008&database=1&pageSize=20&index=1 publisher])[[br]]

'''Web & Grid Technologies in Bioinformatics, Computational Biology and Systems Biology: A Review.''' [[br]]

''Current Bioinformatics'', 3, 10-31, 2008.

== 2007 ==

D. Barthel, J.D. Hirst, J. Błażewicz, E.K. Burke, and N. Krasnogor. ([http://www.biomedcentral.com/1471-2105/8/416/abstract publisher])[[br]]

'''The ProCKSI Server: A Decision Support System for Protein (Structure) Comparison, Knowledge, Similarity and Information.''' [[br]]

''BMC Bioinformatics'' 2007, 8, 416.

A.A. Shah, D. Barthel, and N. Krasnogor ([http://www.springerlink.com/content/90n46423p200502r/ publisher], [http://dblp.uni-trier.de/rec/bibtex/conf/ispa/ShahBK07 bibtex])[[br]]

'''Grid and distributed public computing schemes for structural proteomics.'''[[br]]

In P. Thulasiraman, X. He, T. Li-Xu, M. Denko, R.K. Thulasiram, and L.T. Yang (Eds.), ''Frontiers of High Performance Computing and Networking ISPA 2007 Workshops''. Lecture Notes in Computer Science, 4743, Springer, 424-434, 2007. 

A.A. Shah, D. Barthel, and N. Krasnogor[[br]]

'''Protein Structure Comparison, Analysis and Clustering: An overview of the ProCKSI Decision Support System.'''[[br]]

In ''Proceedings of the 4th International Biotechnology Symposium (IBS 2007)''.[[br]]

University of Sindh, Pakistan, Nov.4-8, 2007. 

=== 2006 ===

D. Barthel, J.D. Hirst, J. Błażewicz, and N. Krasnogor[[br]] 

'''ProCKSI: A Metaserver for Protein Comparison using Kolmogorov and other Similarity Measures.'''[[br]]

In ''Late Breaking Papers. European Conference on Computational Biology'', 2006.[[br]]

Eilat, Israel, 2006. Peer reviewed CDROM publication.

=== 2005 ===

D.A. Pelta, N. Krasnogor, C. Bousono-Calzon, J.L. Verdegay, J. Hirst, and E.K. Burke ([http://dx.doi.org/10.1016/j.fss.2004.10.017 publisher])[[br]]

'''A fuzzy sets based generalization of contact maps for the overlap of protein structures.'''[[br]]

''Journal of Fuzzy Sets and Systems'', 152, 103-123, 2005.

D.A. Pelta, J.R. Gonzales, and N. Krasnogor[[br]]

'''Protein structure comparison through fuzzy contact maps and the universal similarity metric.'''[[br]] 

In ''Fourth Conference of the European Society for Fuzzy Logic and Technology and 11 Recontres Francophones sur la Logique Floue et ses Applications (EUSFLAT-LFA'05)'', 1124-1129, Barcelona, Spain, 2005.

=== 2004 ===

N. Krasnogor ([http://dx.doi.org/10.1023/B:GENP.0000023687.41210.d7 publisher])[[br]]

'''Self-generating metaheuristics in bioinformatics: the protein structure comparison case.'''[[br]]

''Genetic Programming and Evolvable Machines'', 5, 181-201, 2004.

N. Krasnogor and D.A. Pelta ([http://bioinformatics.oxfordjournals.org/cgi/content/abstract/20/7/1015 publisher])[[br]]

'''Measuring the similarity of protein structures by means of the universal similarity metric.'''[[br]]

''Bioinformatics'', 20, 1015-1021, 2004.

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