ProCKSI

= Publications =

This page provides access to all ProCKSI related '''Papers''', '''Posters''', '''Presentations''', '''Demonstrations''', and '''Tutorials'''.[[br]]

When adding new publications, please refer to the [wiki:WikiPolicy Wiki Policy] on how files should be named.

== Papers ==

||2007|| 

 * '''A.A. Shah, D. Barthel, and N. Krasnogor'''[[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, editors, ''Proceedings of the 5th International Symposium on Parallel and Distributed Processing and Applications (ISPA'07)''.[[br]]

   Lecture Notes in Computer Science. Springer (to appear), 2007.

||2006||

 * '''D. Barthel, J.D. Hirst, J. Blacewicz, 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(2):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(2):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(7):1015-1021, 2004.

== Posters ==

||2007||

 * '''D. Barthel, J.D. Hirst, and N. Krasnogor''' 

  ([https://psiren.cs.nott.ac.uk/projects/procksi/browser/Publications/Poster_2007_ECCB06_DanielBarthel.ppt?format=raw PPT])

  [[br]]

  ProCKSi: A Meta-Server for Protein Structure Comparison[[br]]

  European Conference on Computational Biology (ECCB'06), Eilat, Israel[[br]]

||2006||

 * '''D. Barthel, J.D. Hirst, and N. Krasnogor'''

  ([https://psiren.cs.nott.ac.uk/projects/procksi/browser/Publications/Poster_2006_AHM_DanielBarthel.ppt PPT])

  [[br]]

  UK e-science - All Hands Meeting (AHM'06), Nottingham, UK[[br]]  

||2005||

 * '''D. Barthel, J.D. Hirst, and N. Krasnogor'''

  ([https://psiren.cs.nott.ac.uk/projects/procksi/browser/Publications/Poster_2005_GrantholdersWorkshop_DanielBarthel.ppt PPT])

 [[br]]

 Similarity Comparison of Proteins[[br]]

 BBSRC Bioinformatics and e-Science Grantholders Workshop, Manchester, UK [[br]]

== Presentations ==

||2007||

 * '''D. Barthel '''

 ([https://psiren.cs.nott.ac.uk/projects/procksi/browser/Publications/Presentation_2007_RAD_DanielBarthel.ppt?format=raw PPT])[[br]]

 The ProCKSi-Server: A Decision-Support System for Protein Structure Comparison using Hyper-Heuristics[[br]]

 Research Away Day (RAD'07), Nottingham, UK

 * '''D. Barthel '''

 ([https://psiren.cs.nott.ac.uk/projects/procksi/browser/Publications/Presentation_2007_ASAP_NGDS-Evaluation_DanielBarthel.ppt?format=raw PPT])[[br]]

 The ProCKSi-Server: A Decision-Support Meta-Server for Protein Structure Comparison using Hyper-Heuristics[[br]]

 ASAP, Next Generation Decision Support -  EPSRC Evaluation, Nottingham, UK         

 * '''D. Barthel '''

 ([https://psiren.cs.nott.ac.uk/projects/procksi/browser/Publications/Presentation_2007_ASAP_NGDS-Workshop1_DanielBarthel.ppt?format=raw PPT])[[br]]

 The ProCKSi-Server: A Decision-Support Meta-Server for Protein Structure Comparison[[br]]

 ASAP, Next Generation Decision Support - First Workshop, Nottingham, UK

 * '''D. Barthel '''

 ([https://psiren.cs.nott.ac.uk/projects/procksi/browser/Publications/Presentation_2007_ASAP_DanielBarthel.ppt?format=raw PPT])[[br]]

 The ProCKSi-Server: A Meta-Server for Protein Structure Comparison[[br]]

 ASAP, Group Seminar, Nottingham, UK

 * '''D. Barthel '''

 ([https://psiren.cs.nott.ac.uk/projects/procksi/browser/Publications/Presentation_2007_ASAP_CASP_DanielBarthel.ppt?format=raw PPT])[[br]]

 Evaluating CASP7 - Thoughts and Challenges[[br]]

 ASAP, CASP Workshop, Nottingham, UK

 * '''D. Barthel '''

 ([https://psiren.cs.nott.ac.uk/projects/procksi/browser/Publications/Presentation_2006_CNIO_DanielBarthel.ppt?format=raw PPT])[[br]]

 The ProCKSi-Server: A Meta-Server for Protein Comparison using Kolmogorov and other Similarity Measures[[br]]

 CNIO, Group Seminar, Madrid, Spain

||2006||

 * '''D. Barthel '''

 ([https://psiren.cs.nott.ac.uk/projects/procksi/browser/Publications/Presentation_2006_EMPW_DanielBarthel.ppt?format=raw PPT])[[br]]

 The ProCKSi-Server: A Meta-Server for Protein Comparison using Kolmogorov and other Similarity Measures[[br]]

 East Midlands Proteomics Workshop (EMPW'06), Nottingham, UK

 * '''D. Barthel '''

 ([https://psiren.cs.nott.ac.uk/projects/procksi/browser/Publications/Presentation_2006_RAD_DanielBarthel.ppt?format=raw PPT])[[br]]

 An Introduction to the ProCKSi-Server[[br]]

 Research Away Day (RAD'06), Nottingham, UK

 * '''D. Barthel '''

 [https://psiren.cs.nott.ac.uk/projects/procksi/browser/Publications/Presentation_2006_ASAP_DanielBarthel.ppt?format=raw PPT])[[br]]

 Similarity Comparison of Proteins - The ProCKSi-Server[[br]]

 ASAP, Group Seminar, Nottingham, UK

 * '''D. Barthel '''

 ([https://psiren.cs.nott.ac.uk/projects/procksi/browser/Publications/Presentation_2006_ASAP_CASP_DanielBarthel.ppt?format=raw PPT])[[br]]

 CAFASP - An Overview and Comparison with CASP and other Competitions[[br]]

 ASAP, CASP Workshop, Nottingham, UK

 * '''D. Barthel '''

 ([https://psiren.cs.nott.ac.uk/projects/procksi/browser/Publications/Presentation_2006_SchoolOfChemistry_DanielBarthel.ppt?format=raw PPT])[[br]]

 Similarity Comparison of Proteins - The ProCKSi-Server[[br]]

 School of Chemistry, Group Seminar, Nottingham, UK

== Demonstrations ==

||2006||

 * '''D. Barthel'''

 (Part1: [https://psiren.cs.nott.ac.uk/projects/procksi/browser/Publications/Demonstration_2006_AHM_Part1_DanielBarthel.ppt?format=raw PPT], Part2: [https://psiren.cs.nott.ac.uk/projects/procksi/browser/Publications/Demonstration_2006_AHM_Part2_DanielBarthel.ppt?format=raw PPT])[[br]]

 The ProCKSi-Server: A Meta-Server for Protein Comparison using Kolmogorov and other Similarity Measures[[br]]

 Part1: Overview and Background, Part2: Offline Demonstration[[br]]

 UK e-science - All Hands Meeting (AHM'06), Nottingham, UK '''&'''[[br]] 

 School of Chemistry, Group Seminar, Nottingham, UK

||2005||

 * '''D. Barthel, N. Krasnogor'''[[br]]

 Similarity Comparison of Proteins[[br]]

 BBSRC Bioinformatics and e-Science Grantholders Workshop, Manchester, UK

== Tutorials ==

||2007||

 * '''D. Barthel '''

 ([https://psiren.cs.nott.ac.uk/projects/procksi/browser/Publications/Presentation_2007_ASAP_JournalClub_DanielBarthel.ppt?format=raw PPT])[[br]]

 Total Evidence, Concensus, and Bat Phylogeny: A Distance-Based Approach[[br]]

 ASAP, Journal Club, Nottingham, UK

||2006||

 * '''D. Barthel'''

  ([https://psiren.cs.nott.ac.uk/projects/procksi/browser/Publications/Tutorial_2006_ASAP_ClusterAnalysis_DanielBarthel.ppt PPT])[[br]]

 Cluster Analysis and Validation[[br]]

 ASAP, Journal Club, Nottingham, UK