(Last
Updated: September 17, 2009)
Edited Books or Journals
1. M. Chetty, A. Ngom, and E. Marchiori (Guest
Editors), Special Issue on Computational
Intelligence Methods in Bioinformatics, Neurocomputing
Journal, 2010, To Appear.
2. M. Chetty, B. Schmidt, S. Ahmed, and A. Ngom (Guest Editors), Special Issue on Pattern Recognition Methods
in Bioinformatics, Pattern Recognition Letters, 2010, To Appear.
3. C. Priami, F. Dressler, O.B. Akan,
and A. Ngom
(Guest Editors), Transactions on
Computational Systems Biology X, Lecture Notes in Bioinformatics 5410, VII,
197 p., Softcover, ISBN: 978-3-540-92272-8, December
2008.
Edited Conference Proceedings
1. M. Chetty, A. Ngom, and S. Ahmad (Eds), Pattern Recognition in Bioinformatics: Third
IAPR International Conference, PRIB 2008, Melbourne, Australia; October
15-17, Lecture Notes in Bioinformatics 5265, XVI, 472 p., Softcover,
ISBN: 978-3-540-88434-7, 2008.
2.
M.
Chetty, A. Ngom, S. Ahmad, and S.W. Teng
(Eds),
Proceedings of the Third IAPR International Conference on Pattern Recognition
in Bioinformatics, PRIB 2008, Melbourne, Australia; October 15-17, ISBN
878-0-7326-2226-8, 2008.
Book Chapters
1.
A. Ngom and I. Stojmenovic,
On the Computing Capacity of Multiple-Valued Multiple-Threshold Perceptrons, In Olariu, Stefan; Zomaya, Albert, Y., Handbook
of Bioinspired Algorithms and Applications,
pp.427452, Chapman & Hall/CRC, 2006, Editor(s) -Olariu,
Stefan; Zomaya, Albert, Y., Chapman & Hlla/CRC Computer and Information Science Series, Boca
Raton, FL, September.
2.
A. Ngom and I. Stojmenovic,
Synthesis of Multiple-Valued Circuits by Neural Networks, In Olariu, Stefan; Zomaya, Albert,
Y., Handbook of Bioinspired
Algorithms and Applications, pp.373-426, Chapman & Hall/CRC, 2006,
Editor(s) -Olariu, Stefan; Zomaya,
Albert, Y., Chapman & Hlla/CRC Computer and
Information Science Series, Boca Raton, FL, September.
3.
G.
Vidyarthi, A. Ngom and I. Stojmenovic, Evolutionary Methods in Wireless Mobile
Computing, In Du, Ding-Zhu; Cheng, Maggie; Li, Yingshu,
Combinatorial Optimization in Communication Networks, 3379, 18, Springer, 2006,
Editor(s) -Du, Ding-Zhu; Cheng, Maggie; Li, Yingshu,
Combinatorial Optimization.
Refereed Journals
1. D. Rojas, L. Rueda, H. Urrutia and A. Ngom, Image Segmentation of Biofilm Structures Using Multi-Level Thresholding, IEEE Transactions on Image Processing, 2009. Submitted.
2. L.S. Ghoraie, R. Gras, L. Wang and A. Ngom, Optimal Decoding and Minimal Length for the Non-Unique Oligonucleotide Probe Selection Problem, Neurocomputing - Special Issue on Computational Intelligence Methods in Bioinformatics, 2009. Submitted.
3.
A. Ngom, L. Rueda,
L. Wang and R. Gras, Non-Unique Oligonucleotide Probe
Selection using Evolutionary Methods, Neurocomputing - Special
Issue on Computational Intelligence Methods in Bioinformatics, 2009.
Submitted.
4.
A. Ngom, L. Rueda,
L. Wang and R. Gras, Selection Based Heuristics for the Non-Unique Oligonucleotide Probe Selection Problem in Microarray
Design, Pattern Recognition Letter s-
Special Issue on Pattern Recognition
Methods in Bioinformatics, 2009. Submitted.
5.
Jakupciak, John, P; Maggrah,
Andrea; Maragh, Samantha; Maki, Jennifer; Reguly, Brian; Maki, Katrina; Wittock,
Roy; Robinson, Kerry; Wagner, Paul, D; Thayer, Robert, E; Gehman,
Ken; Gehman, Theresa; Srivastava,
Sudhir; Ngom, Alioune; Dakubo, Gabriel, D;
Parr, Ryan, L, Facile whole mitochondrial genome resequencing
from nipple aspirate fluid using MitoChip v2.0, BMC
Cancer, 8(95), pp.1471-2407, 2008, April, BioMed
Central Online Journal.
6.
L.
Wang, A. Ngom,
R. Gras and L. Rueda, An Evolutionary Approach to the
Non-Unique Oligonucleotide Probe Selection Problem, Springer Transactions on Computational
Systems Biology, Lecture Notes in Bioinformatics 5410(X), pp.143-162, 2008,
December.
7.
L.
Rueda, A. Bari and A. Ngom, Clustering Time-series Gene
Expression Data with Unequal Time Intervals, Springer Transactions on Computational Systems Biology, Lecture
Notes in Bioinformatics 5410(X), pp.100-123, 2008, December.
8.
W.
Yang, L. Rueda and A. Ngom, On Finding the Best Parameters
of Fuzzy k-Means for Clustering Microarray Data, Journal of Multiple-Valued
Logic and Soft Computing, 13(2), pp.145-178, 2007.
9.
A. Ngom, D. Simovici
and I. Stojmenovic, Evolutionary Strategy for
Learning Multiple-Valued Logic Functions, Journal
of Multiple-Valued Logic and Soft Computing, 12, pp.459-489, 2006.
10. A.
Ngom,
Parallel Evolution Strategy on Grids for the Protein Threading Problem, Journal of Parallel and Distributed
Computing, 66(12), pp.1489-1502, 2006, Special Issue: Grids in
Bioinformatics and Computational Biology.
11. G. Vidyarthi,
A. Ngom
and I. Stojmenovic, An Hybrid Channel Assignment
Approach using an Efficient
Evolutionary Strategy in Wireless Mobile Networks, IEEE Transactions on Vehicular Technology, 54(5), pp.1887-1895,
2005, September.
12. L. Qin, L. Rueda,
A. Ali and A. Ngom,
Spot Detection and Image Segmentation in DNA Microarray Data, Applied Bioinformatics, 4(1), pp.1-11,
2005.
13. L. French, A. Ngom and L. Rueda,
Fast Protein Superfamily Classification
using Principal Component Null Space Analysis, The 18-th Canadian Conference on Artificial
Intelligence, Victoria, B.C., May, Lecture Notes in Artificial
Intelligence 3501, pp.158-169, 2005, Springer.
14. A.
Ngom,
I. Stojmenovic and J. Zunic,
On the Number of Multilinear Partitions and the
Computing Capacity of Multiple-Valued Multiple-Threshold Perceptrons,
IEEE Transactions on Neural Networks,
14(3), pp.469-477, 2003, May.
15. A.
Ngom,
I. Stojmenovic and V. Milutinovic,
STRIP – A Strip-Based Neural Network Growth Algorithm for Learning
Multiple-Valued Functions, IEEE
Transactions on Neural Networks, 12(2), pp.212-227, 2001, March.
16. A.
Ngom,
I. Stojmenovic, Ivan and R. Tosic,
The Computing Capacity of Three-Input Multiple-Valued One-Threshold Perceptrons, Neural
Processing Letters, 14(2), pp.141-155, 2001.
17. A.
Ngom,
C. Reischer, D. Simovivi
and I. Stojmenovic, Learning with Permutably
Homogeneous Multiple-Valued Multiple-Threshold Perceptrons,
Neural Processing Letters, 12,
pp.71-90, 2000, August.
18. A.
Ngom,
Genetic Algorithm for the Jump Number Scheduling Problem, Order – A Journal on the Theory of Ordered Sets and its Applications,
15(1), pp.59-73, 1998.
19. A.
Ngom,
C. Reischer, D. Simovivi
and I. Stojmenovic, Set-Valued Logic Algebra: A
Carrier Computing Foundation, Multiple-Valued
Logic – An International Journal, 2, pp.183-216, 1997.
Refereed Conferences
1.
Z.
Ibrahim, A. Ngom
and A. Tawfik, Qualitative Motif Detection in Gene
Regulatory Networks, IEEE International
Conference on Bioinformatics and Biomedicine, BIBM 2009, Washington DC,
USA, November 1-4, To Appear.
2.
N.
Subhani, L. Rueda, A. Ngom and
C.J. Burden, Clustering Microarray Time-Series Data using Expectation
Maximization and Multiple Profile Alignment, IEEE International Conference on Bioinformatics and Biomedicine –
Workshop on Applications of Machine Learning in Bioinformatics, BIBM-AMLB
2009, Washington DC, USA, November 1-4, To Appear.
3.
D.
Rojas, L. Rueda, A.
Ngom, H. Urrutia and G.
Carcamo, Biofilm Image
Segmentation Using Optimal Multi-Level Thresholding, IEEE International Conference on Bioinformatics
and Biomedicine, BIBM 2009, Washington DC, USA, November 1-4, To Appear.
4.
D.
Rojas, L. Rueda, H. Urrutia
and A. Ngom,
An Optimal Multi-Level Thresholding Algorithm for Biofilm Image Segmentation, The 4-th IAPR International Conference on Pattern Recognition in
Bioinformatics, PRIB 2009, Sheffield,
United Kingdom, September 5-9, Lecture
Notes in Bioinformatics 5780, pp.307-318, 2009.
5.
L.S.
Ghoraie, R. Gras, L. Wang and A. Ngom, Bayesian Optimization Algorithm
for the Non-Unique Oligonucleotide Probe Selection
Problem, The 4-th IAPR International
Conference on Pattern Recognition in Bioinformatics, PRIB 2009, Sheffield, United Kingdom, September 5-9, Lecture Notes in Bioinformatics 5780,
pp.365-376, 2009.
6.
N.
Subhani, A. Ngom, L. Rueda and C. Burden,
Microarray Time-Series Data Clustering via Multiple Alignment of Gene
Expression Profiles, The 4-th IAPR International Conference on Pattern Recognition in
Bioinformatics, PRIB 2009, Sheffield,
United Kingdom, September 5-9, Lecture
Notes in Bioinformatics 5780, pp.377-390, 2009.
7.
Z.
Ibrahim, A. Tawfik and A. Ngom, Surprise-based Qualitative
Probabilistic Networks, The 10th European
Conference on Symbolic and Quantitative Approaches to Reasoning with
Uncertainty, ECSQARU 2009, Verona, Italy, July 1-3, Lecture Notes in Artificial
Intelligence 5590, pp.228-239, 2009.
8.
Z.
Ibrahim, A. Tawfik and A. Ngom, A Surprise-based Qualitative
Calculus, FLAIRS 2009, pp.573-574, 2009.
9.
X.
Wu, A. Jaekel, A. Bari and A. Ngom,
Optimized hybrid resource allocation in wireless cellular networks with and
without channel reassignment, The 6-th IEEE
International Conference on Information Technology: New Generations, ITNG
2009, Las Vegas, Nevada, USA, April 27-29, pp.1146-1151, 2009.
10. L. Wang, A. Ngom and L. Rueda,
Sequential Forward Selection Approach to the Non-unique Oligonucleotide
Probe Selection Problem, The 3-rd IAPR
International Conference on Pattern Recognition in Bioinformatics, PRIB
2008, Melbourne, Australia, October 15-17, Lecture
Notes in Bioinformatics 5265, pp.262-275, 2008.
11. A. Bari, L. Rueda
and A. Ngom,
Microarray Time-Series Data Classification via
Multiple Alignment of Gene Expression Profiles,
The 3-rd IAPR International Conference on
Pattern Recognition in Bioinformatics, PRIB 2008, Melbourne, Australia,
October 15-17, 2008, ISBN 978-0-7326-2226-8.
12. X. Li, A. Ngom
and L. Rueda, Minimal siRNA
Set Cover Heuristic for Gene Family Knockdown, The 3-rd IAPR International Conference on Pattern Recognition in
Bioinformatics, PRIB 2008, Melbourne, Australia, October 15-17, ISBN
978-0-7326-2226-8.
20. L. Wang, A. Ngom, R. Gras and L. Rueda, Evolution Strategy with Greedy Probe Selection
Heuristics for the Non-Unique Oligonucleotide Probe
Selection Problem, The 2008 IEEE
Symposium on Computational Intelligence in Bioinformatics and Computational
Biology, CIBCB 2008, September 15-17, Sun Valley, Idaho, USA, ISBN
978-1-4244-1779-7. Recognized for the Best Overall Paper Award.
21. Z. Ibrahim, A. Tawfik and A. Ngom, Qualitative Hidden Markov Models for Classifying Gene Expression Data, The 28-th Conference on Innovative Techniques and Applications of Artificial Intelligence, Italy, Lecture Notes in Artificial Intelligence, pp.47-60, 2008.
22. L. Wang, A. Ngom and R. Gras, Non-Unique Oligonucleotide Microarray Probe Selection Method Based on
Genetic Algorithms, The 2008 IEEE
Congress on Evolutionary Computation, CEC 2008, Hong Kong, China, June 1-5,
pp.1004-1011.
23. L. Wang and A. Ngom, A Model-Based Approach to the
Non-Unique Oligonucleotide Probe Selection Problem, The 2-nd International Conference on
Bio-Inspired Models of Network, Information and Computing Systems, Bionetics 2007, Budapest, Hungary, December 10-12, 2007,
ISBN: 978-963-9799-05-9.
24. Z. Ibrahim, A. Tawfik and A. Ngom, A Qualitative Hidden Markov Model for Spatio-Temporal Reasoning, The 9-th European Conference on Symbolic and Quantitative Approaches to
Reasoning with Uncertainty, ECSQARU 2007, Hammammet,
Tunisia, Lecture Notes in Artificial Intelligence, pp.707-718, 2007.
25. T. Farid,
A. Ngom
and A. Jaekel, Integrated Hybrid Channel Assignment
and Distributed Power Control in Wireless Cellular Networks using Evolution
Strategy, The 1-st IEEE Symposium on
Computational Intelligence in Image and Signal Processing, CIISP 2007,
Honolulu, Hawaii, USA, April, pp.293-300, 2007.
26. R. Islam and A. Ngom, Protein Threading using Parallel
Evolution Strategy, The 2006 IEEE
Congress on Evolutionary Computation, CEC 2006, Vancouver, B.C., Canada,
July, pp.8111-8118, 2006.
27. W. Yang, L. Rueda
and A. Ngom,
A Simulated Annealing Approach to Find the Optimal Parameters for Fuzzy
Clustering Microarray Data, The 2005
International Conference of the Chilean Computer Science Society, SCCC
2005, Valdivia, Chile, November, pp.45-54, 2005.
28. R. Islam and A. Ngom, Parallel Evolution Strategy for
Protein Threading, The 2005 International
Conference of the Chilean Computer Science Society, SCCC 2005, Valdivia,
Chile, November, pp.74-83, 2005.
29. M. Aggarwal,
R.D. Kent and A. Ngom,
Genetic Algorithm Based Scheduler for Computational Grids, The 19-th International Symposium on High Performance Computing Systems
and Application, HPCS 2005, Guelph, Ontario, May, pp.209-215, 2005.
30. L. Rueda
and A. Ngom,
An Empirical Evaluation of the Classification
Error of Two Thresholding Methods for Fisher’s Classifier, The
2004 International Conference on Machine Learning, Model, Technology and its
Applications, Las Vegas, Nevada, June, pp.837-842, 2004
31. A.
Ngom,
D.A. Simovici and I. Stojmenovic,
An Evolution Strategy for Learning Multiple-Valued Functions, The IEEE 34-th International Symposium on
Multiple-Valued Logic, ISMVL 2004, Toronto, Ontario, May, pp.154-160, 2004.
32. Djurdjevic, M.B.; Francis,
R.; Lashkari, R.S.; Ngom, A.; Sokolowski, J.H., Application of
Artificial Neural Networks in the Prediction of the Aluminium
Silicon Modification Level of W319 Aluminium Alloys,
2003 American Foundry Society Transactions, 111, 2003, Des Plaines, Illinois,
USA, April, 107th Metalcasting Congress, Milwaukee,
Wisconsin.
33. A.
Ngom,
I. Stojmenovic, Ivan and R. Tosic,
The Computing Capacity of Three-input Multiple-Valued One-Threshold Perceptrons, The IEEE
30-th International Symposium on Multiple-Valued Logic, ISMVL 2000,
Portland, Oregon, May, pp.33-38, 2000.
34. A.
Ngom,
I. Stojmenovic and J. Zunic,
On the Number of Multilinear Partitions and the
Computing Capacity of Multiple-Valued Multiple-Threshold Perceptrons,
The IEEE 29-th International Symposium on
Multiple-Valued Logic, ISMVL 1999, Freiburg, Germany, May, pp.208-213,
1999.
35.
A. Ngom, C. Reischer,
D.A. Simovivi and I. Stojmenovic,
Learning with Permutably Homogeneous Multiple-Valued
Multiple-Threshold Perceptrons, The IEEE 28-th International Symposium on Multiple-Valued Logic,
ISMVL 1998, Fukuoka, Japan, May, pp.161-166, 1998.
36. A. Ngom, Z. Obradovic, and I. Stojmenovic,
Minimization of Multiple-Valued Multiple-Threshold Perceptrons
Using Genetic Algorithms, The IEEE 28-th
International Symposium on Multiple-Valued Logic, ISMVL 1998, Fukuoka,
Japan, May, pp.209-214, 1998.
37. A. Ngom, C. Reischer, D.A. Simovivi and I. Stojmenovic, Completeness Criteria in Set-Valued Logic
under Compositions with Union and Intersection, The IEEE 27-th International Symposium on Multiple-Valued Logic,
ISMVL 1997, Antigonish, Nova Scotia, May, pp.75-82,
1997.
38. A.
Ngom,
C. Reischer, D.A. Simovivi
and I. Stojmenovic, Classification
of Functions and Enumeration of Bases of Set Logic under Boolean Compositions, The IEEE 25-th International Symposium on
Multiple-Valued Logic, ISMVL 1995, Boston, Massachusetts, May, pp.78-85,
1995.
Posters, Abstracts, and Non Refereed
Contributions
1.
Z.
Ibrahim, A. Tawfik and A. Ngom, A
Surprise-Based Qualitative Calculus, FLAIRS 2009. Poster.
2.
V.A.
Gallardo, H. Urrutia, N. Ruiz-Tagle,
C. Espinoza, L. Rueda, A. Ngom, C. Monsalve,
A. Fonseca, J. Gutierrez, S. Rojas and L. Abarzua,
High throughput sequencing to assess benthic bacteria biodiversity off central Chile, 2009 Census of Marine Life Synthesis Workshop, CoML
2009, February 1-5, Long Beach, California, 2009. Abstract.
3.
D.
Rojas, G. Carcamo, H. Urrutia,
L. Rueda and A.
Ngom, Evaluacion de Algoritmos para la Segmentacion Objetiva de Imagenes de Biopeliculas, XI Congreso Chileno de Microbiologia, Sociedad de Microbiologia de
Chile y Sociedad Chilena de
Immunologia, 2008, December, December 4-6,
Concepcion, Chile. Poster.
4.
R.
Islam and A. Ngom,
Parallel Evolution Strategy for Protein Threading, Workshop on Mathematical Programming in Data Mining and Machine
Learning, McMaster University, Hamilton, Ontario, Canada, 2005, June.
5.
A. Ngom, Parallel Evolutionary
Algorithms for Protein Threading, Technical
Report, University of Windsor, Ontario, 05011, May 2005.
6.
A. Ngom and K. Shi, Parallel Stochastic
Context-Free Grammar Training for tRNA Secondary
Structure Prediction, Technical Report,
University of Windsor, Ontario, 03011, May 2003.
7.
A. Ngom, Completeness Criteria in Set-Valued
Logic under Compositions with Union and Intersection, 11-th Ontario Combinatoric Workshop, Ryerson
Polytechnic Institute, 1997, Toronto, April.
8.
A. Ngom, Genetic Algorithms for the Jump
Number Scheduling Problem, 10-th Ontario Combinatoric Workshop, Fields Institute of Mathematical
Research, 1996, Toronto, April.
9.
D.
Ait-Kadi, A.D. Paradis, A. Ngom and
S. Varet, Systeme Expert
pour la Detection des Defauts de Fonctionnement
d’un Motocompresseur, Technical Report, Universite du Quebec a Trois-Rivieres, Quebec, December 1990.
Dissertations
1.
A. Ngom, Synthesis of Multiple-Valued
Logic Functions by Neural Networks, Ph.D.
Thesis Dissertation, Computer Science Department, University of Ottawa,
Ontario, October 1998.
2.
A. Ngom, Set-Valued Logic Foundation of
Carrier Computing, M.Sc. Thesis
Dissertation, Computer Science Department, University of Ottawa, January
1995.
Patents
1.
M.
Birch-Machin, G.D. Dakubo,
R. Parr, R. Thayer, A. Ngom and J. Th’ng, Complete Mitochondrial Genome Sequence as a
Diagnostic Tool for the Health Sciences, Genesis Genomics Inc., Thunder
Bay, Ontario, USPTO (Document No 20050026167, Application No 732374,
Application Date 2003-12-11), WIPO (Document No 2005/056573, Application No
PCT/CA2004/002124, Application Date 2004-12-13), EPO (Document No EP1694695,
Application No EP20040802299 20041213, Publication Date 2006-08-30), EPO
(Document No EP1397508, Application No EP20020737683 20020610, Publication Date
2004-0317), WIPO (Document No 2002/101086, Application No PCT/CA2002/000848,
Application Date 200206-10). Description: Using mitochondrial DNA (mtDNA) to detect the early stage of a disease (cancer, in
particular), by analyzing and classifying its mutations.