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]] Burke'''[[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]] Krasnogor'''[[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]] Pelta'''[[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