1. Zaki, N. M, S. Deris and H. Alashwal (2006), “Protein Protein Interaction
Detection Based on Substring Sensitivity Measure", International Journal on
Biomedical Sciences, Vol. 1, pp: 148-154.
2. Zaki, N. M (Submitted). “Protein Homology Detection via String Scoring
Method”, International Journal on Computational Intelligence and Applications
(IJCIA).
3. Zaki, N. M., (2006). "Detecting Remote Protein Evolutionary and Structural
Relationships via String Scoring Method". The 2006 IEEE, International
Conference on Machine Learning and Cybernetics (ICMLC 2006).
4. Zaki, N. M. and Deris, S. (2005), “Representing Protein Sequence with Low
Number 0f Dimensions”, Journal of Biological Sciences, 5(6): 795-800.
5. Zaki, N. M., Deris, S., and Illias, R. M. (2005). “Performance analysis of string
kernel on protein remote homology detection”, Applied Bioinformatics, Volume
4, issue 1, pages 45-52. (This paper was selected to be included in a book chapter
focuses on the application of support vector machines in bioinformatics).
6. Zaki, N. M., Deris, S., and Illias, R. M. (2005), “Protein Sequences Classification
Based on String Weighting Scheme”, International Journal of The Computer, The
Internet and Management (IJCIM), Volume 13#1.
7. Zaki, N. M., Deris, S., and Illias, R. M. (2005), “Simple Representation of Protein
Sequence for detecting homology”, In the International Conference on Artificial
Intelligence ICAI'05.
8. Zaki, N. M., Deris, S., and Illias, R. (2004), “Feature Extraction for Protein
Homologies Detection Using Markov Models Combining Scores”, International
Journal on Computational Intelligence and Applications (IJCIA), Volume 4, No.
1: pages 1-12. (This paper was selected as a sample for the World Scientific and
Imperial College Press for the new 2005 catalogue).
9. Zaki, N. M., Deris, S., and Chin, K. K. (2003), “A comparison of quadratic
programming solvers in support vector machines training”, Jurnal Teknologi.
39(D): pages 45-56.
10. Zaki, N. M., Deris, S., and Illias, R. M. (2003), “A comparative Analysis of
Protein Remote Homologies Detection Methods”, Journal of Theoretics, volume
5-4, USA.
11. Zaki, N. M., Deris, S., Illias, R. M., and Arjunan, S. N. V, (2003), “Assignment of
Protein Sequence to Functional Family Using Neural Network and DempsterShafer Theory”, The World Wide Web Journal of Biology, Volume 8-8, Epres.
12. Zaki, N. M., Deris, S., and Illias, R. (2003),”Application of String Kernel in
Protein Sequence Classification”, In the International Conference on
Bioinformatics INCOB 2003.
13. Zaki, N. M., Deris, S., and Illias, R. (2003), “Features Extraction through Hidden
Markov Model Combining Scores” In International Conference on Bioinformatics
INCOB 2003.
14. Zaki, N. M., Deris, S., Illias, R. M., and Lee Chin, Y. (2003), “Performance
Analysis of String Kernel on Protein Sequence Classification”, In Artificial
Intelligence Application in Industry (AIAI 2003), Malaysia.
15. Lee Chin, Y., Deris, S., Illias, R., Zaki, N. M., and Mohamed R. (2003),
“Advancement of Bioinformatics in Malaysia”, Advanced Technology Congress
(ACT 2003), University Putra Malaysia, Malaysia.
16. Zaki, N. M., Deris, S., and Chin, K. K. (2002), “Extending the decomposition
algorithm for support vector machines training”, Journal of Information and
Communication Technology (JICT), volume 1: pages 17-29.