(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.