Papers submitted for publication:

More coming soon!

Papers already published or accepted for publication:

O.M. Beigi, L.R. Nobrega, S. Houghten, A. Alves Pereira and A. de Oliveira Andrade, Freezing of gait in Parkinson's disease: Classification using computational intelligence, Biosystems 232:105006, 2023.

J. Sargant, M. Dube and S. Houghten, All Lockdowns are not Equal: Reducing Epidemic Impact through Evolutionary Computation, Biosystems 230:104935, 2023.

E. Rutkowski, S. Houghten and J.A. Brown, A Multi-Objective Genetic Algorithm for the Compression of Weighted Graphs, Applied Soft Computing 144:110486, 2023.

M. Dube, K. Olenic and S. Houghten, What Drives Evolution of Self-Driving Automata?, 2023 Symposium Series on Computational Intelligence, 6 pages (to appear).

K. Olenic and S. Houghten, Dungeons, Dragons, and Data Breaches: Analyzing AI Attacks on Various Network Configurations, 2023 International Conference on Wireless, Intelligent, and Distributed Environment for Communication (WIDECOM), 16 pages (to appear).

M. Dube, J. Sargant, S. Houghten and S. Graether, From Bits to Bases: Evolving a Versatile Construct for Biological Sequence and Network Data, 2023 IEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology, 9 pages, 2023.

M. Dube, J. Sargant and S. Houghten, Comparison of Representations to Evolve Weighted Contact Networks with Epidemic Properties, 2023 IEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology, 8 pages, 2023.

F. Yasmeen, M. Dube and S. Houghten, Severity v. Spread: Evolving Networks and Epidemic Dynamics, 2023 IEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology, short paper (2 pages), 2023.

M. Dube and S. Houghten, Evaluation of Frameworks for Epidemic Variants and Infectivity using an Evolutionary Algorithm, 2022 IEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology, 9 pages, 2022.

J. Sargant, M. Dube and S. Houghten, Evolving Lockdown Strategies to Minimize Infections in an Epidemic, 2022 IEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology, 8 pages, 2022.

O.M. Beigi, L.R. Nobrega, S. Houghten, A. de Oliveira Andrade and A.A. Pereira, Classification of Parkinson's Disease Patients and Effectiveness of Medication for Freezing of Gait, 2022 IEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology, 8 pages, 2022.

T. Navikevicius, T.K. Collins and S. Houghten, GADGIT: A Toolbox for Disease Gene Identification, 2022 IEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology, short paper (2 pages), 2022.

J. Sargant, S. Houghten and M. Dube, Evolving Weighted Contact Networks for Epidemic Modeling: the Ring and the Power, 2022 IEEE Congress on Evolutionary Computation, 9 pages, 2022.

M. Dube and S. Houghten, Now I Know my Alpha, Beta, Gammas: Variants in an Epidemic Scheme, 2022 IEEE Congress on Evolutionary Computation, 8 pages, 2022.

S. Houghten and S. Banik, Effective Decoders for DNA Codes, Biosystems 211: 104583, 2022.

G. Chen, J. Sargant, S. Houghten and T.K. Collins, Identification of Genes Associated with Alzheimer's Disease using Evolutionary Computation, 2021 IEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology, 9 pages, 2021.

D. Ashlock, J.A. Brown, S. Houghten and M. Makhmutov, One Moose, Two Moose, Three Fields, More?, 2021 IEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology, 7 pages, 2021.

S. Amin, S. Houghten and J. Hughes, Vaccinating a Population is a Changing Programming Problem, 2021 IEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology, 10 pages, 2021.

O.M. Beigi, M. Dube and S. Houghten, Simulating Partial Immunity in an Epidemic, 2021 IEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology, short paper (2 pages), 2021.

V. Suaste Morales and S. Houghten, Lossy Compression of Quality Values in Sequencing Data, ACM/IEEE Transactions on Computational Biology and Bioinformatics 18, p. 1958-1969, 2021.

E. Rutkowski, J. Sargant, S. Houghten and J.A. Brown, Evaluation of Communities from Exploratory Evolutionary Compression of Weighted Graphs, 2021 IEEE Congress on Evolutionary Computation, p. 434-441, 2021.

R. Vega Jimenez, M. Dube, S. Houghten and J. Hughes, Weighting on the World to Change... an Epidemic, 2021 IEEE Congress on Evolutionary Computation, p. 450-457, 2021.

J. Hughes, W. Hannah, P. Kikkert, B. MacKenzie, W. Ashlock, S. Houghten, D.Ashlock, M. Stoodley, M. Dube, R. Brown and A. Saunders, We Are Not Pontius Pilate: Acknowledging Ethics and Policy, IEEE Symposium Series on Computational Intelligence, p. 2975-2984, 2020.

J.A. Hughes, S. Houghten and J.A. Brown, Models of Parkinson's Disease Patient Gait, IEEE Journal of Biomedical and Health Informatics 24, p. 3103-3110, 2020.

M. Dube, S. Houghten, D. Ashlock and J. Hughes, Evolving the Curve, 2020 IEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology, 8 pages, 2020.

E. Rutkowski, S. Houghten and J.A. Brown, Extracting Information from Weighted Contact Networks via Genetic Algorithms, 2020 IEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology, 8 pages, 2020.

J. Hughes, M. Dube, S. Houghten and D. Ashlock, Vaccinating a Population is a Programming Problem, 2020 IEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology, 8 pages, 2020.

S. Banik and S. Houghten, Effective Side Effect Machines for Decoding, 2020 IEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology, 8 pages, 2020.

J. Hughes, R. Reid, S. Houghten and R. Anderson, Using Genetic Programming to Investigate a Novel Model of Resting Energy Expenditure for Bariatric Surgery Patients, 2020 IEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology, 8 pages, 2020.

E. Rutkowski and S. Houghten, Cryptanalysis of RSA: Integer Prime Factorization Using Genetic Algorithms, IEEE Congress on Evolutionary Computation, 8 pages, 2020.

J.A. Hughes, S. Houghten and J.A. Brown, Gait Model Analysis of Parkinson's Disease Patients under Cognitive Load, IEEE Congress on Evolutionary Computation, 8 pages, 2020.

M. Dube, S. Houghten and D. Ashlock, Modelling of Epidemics with Vaccination Strategies using Evolutionary Computation, IEEE Congress on Evolutionary Computation, 8 pages, 2020.

J.A. Brown, D. Ashlock, S. Houghten and A. Romualdo, Evolutionary Graph Compression and Diffusion Methods for City Discovery in Role Playing Games, IEEE Congress on Evolutionary Computation, 8 pages, 2020.

T.K. Collins and S. Houghten, A Centrality Based Multi-Objective Approach to Disease Gene Association, BioSystems 193-194: 104133, 2020.

A. Fazeli and S. Houghten. Deep Learning for the Prediction of Stock Market Trends, 2019 IEEE International Conference on Big Data - Workshop on Big Data for Financial News and Data, p. 5513-5521, 2019.

J.A. Hughes, S. Houghten and J.A. Brown, Descriptive Symbolic Models of Gaits from Parkinson's Disease Patients, 2019 IEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology, 8 pages,  2019.

S. Houghten, A. Romualdo, T.K. Collins and J.A. Brown, Compression of Biological Networks using a Genetic Algorithm with Localized Merge, 2019 IEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology, 8 pages, 2019.

M. Dube, S. Houghten and D. Ashlock, Pandemic: A Graph Evolution Story. 2019 IEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology, 8 pages, 2019.

M. Dube, S. Houghten and D. Ashlock, Representation for Evolution of Epidemic Models. 2019 IEEE Congress on Evolutionary Computation, 8 pages, 2019.

Z. Dahi, Y. Girilishena, A. Joshi, W. Tang, S. Golem, C. Huang, C. van Schouwen, W. Yang, S. Houghten, P. Liang, Complete sequence characterization and population distribution analysis of 4,400 polymorphic mobile element insertions in humans, Abstract, FASEB Summer Research Conference: "The mobile DNA conference: 25 years of discussions", 2019.

M. Dube, S. Houghten and D. Ashlock, Parameter Selection for Modeling of Epidemic Networks, 2018 IEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology, 8 pages, 2018.

S. Houghten, T.K. Collins, J.A. Hughes and J.A. Brown, Edit Metric Decoding: Return of the Side Effect Machines, 2018 IEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology, 8 pages, 2018. Awarded Best Paper.

Y. Kazemi and S. Houghten, A Deep Learning Pipeline to Classify Different Stages of Alzheimer's Disease from fMRI Data, 2018 IEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology, 8 pages, 2018.

A. Saunders, D. Ashlock and S. Houghten, Hierarchical Clustering and Tree Stability, 2018 IEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology, 8 pages, 2018.

T.K. Collins and S. Houghten, A Future Direction for the Disease Gene Association Problem, 2018 IEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology, Extended Abstract (2 pages), 2018.

D. Ashlock and S. Houghten, Hybridization and Ring Optimization for Larger Sets of Embeddable Biomarkers, 2017 IEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology, p. 1-8, 2017.

T.K. Collins, A. Zakirov, J.A. Brown and S. Houghten, Single-Objective and Multi-Objective Genetic Algorithms for Compression of Biological Networks, 2017 IEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology, p. 1-8, 2017.

J. Orth, S. Houghten and L. Tulloch, Evaluation of the Salmon Algorithm, 2017 IEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology, p. 1-8,  2017.

P.E. Becker, M. Derka, S. Houghten and J. Ulrich, Build a Sporadic Group in Your Basement, American Mathematical Monthly 124, p.291-305, 2017. Awarded 2018 Halmos-Ford Award by the MAA (Mathematical Association of America).

J.A. Hughes, S. Houghten and D. Ashlock, Permutation Problems, Genetic Algorithms, and Dynamic Representations, book chapter for "Nature Inspired Computing and Optimization: Theory and Applications", Springer book series on Modelling and Optimization in Science and Technology, p. 123-149, 2017.

J.A. Hughes, S. Houghten and D. Ashlock, Restarting and recentering genetic algorithm variations for DNA fragment assembly: the necessity of a multi-strategy approach, BioSystems 150, p. 35-45, 2016.

J.A. Brown, S. Houghten, T.K. Collins and Q. Qu, Evolving Graph Compression using Similarity Measures for Bioinformatics Applications, 2016 IEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology, 1-6, 2016.

A. Entezari Heravi and S. Houghten, A Methodology for Disease Gene Association using Centrality Measures, 2016 IEEE World Congress on Computational Intelligence, 24-31, 2016.

L. Plant and S. Houghten, Properties of Optimal and Near Optimal Edit Metric Error Correcting Codes, Congressus Numerantium 224, p.147-157, 2015.

D. Ashlock and S. Houghten, Lexicode Crossover for Embeddable Biomarkers, 2015 IEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology, 1-7, 2015.

A. Entezari Heravi, K. Tahmasebipour and S. Houghten, Evolutionary Computation for Disease Gene Association, 2015 IEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology, 1-8, 2015.

M. Goodarzi, S. Houghten and P. Liang, Effect of Multi-K Contig Merging in de novo DNA Assembly, 2014 IEEE Conference on Bioinformatics and Bioengineering, 355-361, 2014.

K. Tahmasebipour and S. Houghten, Disease-Gene Association using a Genetic Algorithm, 2014 IEEE Conference on Bioinformatics and Bioengineering, 191-197, 2014.

J. Hughes, S. Houghten and D. Ashlock, Recentering and Restarting a Genetic Algorithm using a Generative Representation for an Ordered Gene Problem, International Journal of Hybrid Intelligent Systems, Vol.11, No.4, 257-271, 2014.

C. Price, S. Houghten, S. Vassiliev and D. Bruce, Modeling Metal Protein Complexes from Experimental Extended X-ray Absorption Fine Structure using Evolutionary Algorithms, 2014 IEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology, 1-8, 2014.

J. Hughes, S. Houghten, G. Mallen-Fullerton and D. Ashlock, Recentering and Restarting Genetic Algorithm Variations for DNA Fragment Assembly, 2014 IEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology, 1-8, 2014. Awarded Best Student Paper.

G. Mallen-Fullerton, J. Hughes, S. Houghten and G. Fernandez-Anaya, Benchmark Data Sets for the DNA Fragment Assembly Problem, International Journal of Bio-Inspired Computation, Vol.5, No.6, p.384-394, 2013.

J. Hughes, S. Houghten and D. Ashlock, Recentering, Reanchoring and Restarting an Evolutionary Algorithm, 5th World Congress on Nature and Biologically Inspired Computing, p.76-83, 2013.

J. Hughes, J. Brown, S. Houghten and D. Ashlock, Edit Metric Decoding: Representation Strikes Back, IEEE Congress on Evolutionary Computation, p.229-236, 2013.

M. Derka, S. Houghten and P. Becker, A methodology for constructing the basis of a putative (72,36,16) extremal code for a given automorphism group, Congressus Numerantium 212, p.173-193, 2012.

Z. Li and S. Houghten, Searching for optimal deletion correcting codes: new properties and extensions of Tenengolts Codes, 12th IEEE International Conference on Computer and Information Technology (CIT 2012), p. 647-654, 2012.

D. Ashlock, S. Houghten, J.A. Brown and and J. Orth, "On the Synthesis of DNA Error Correcting Codes", BioSystems 110, p.1-8, 2012.

D.E. McCarney, S. Houghten and B.J. Ross, Evolutionary Approaches to the Generation of Optimal Error Correcting Codes, Genetic and Evolutionary Computation Conference (GECCO 2012), ACM, p.1135-1142, 2012.

F. Alizadeh Noori and S. Houghten, A MultiObjective Algorithm with Side Effect Machines for Motif Discovery, 2012 IEEE Symposium on Computational Intelligence in Bioinformatics and Computational Biology, p.275-282, 2012.

P.Comte, S.Vassiliev, S.Houghten and D.Bruce, "Genetic Algorithm with Alternating Selection Pressure for Protein Sidechain Packing and pK(a) Prediction", BioSystems 105, p.263-270, 2011.

J.A.Brown, D.Ashlock, S.Houghten and J.Orth,  Autogeneration of Fractal Photographic Mosaic Images, 2011 IEEE Congress on Evolutionary Computation, p.1116-1123, June 2011.

J.Orth and S.Houghten, Optimizing the Salmon Algorithm for the Construction of DNA Error-Correcting Codes, 2011 IEEE Symposium on Computational Intelligence in Bioinformatics and Computational Biology, April 2011.

J.Sun, S.Houghten and J.Ross, "Bounds on Edit Metric Codes with Combinatorial DNA Constraints", Congressus Numerantium 204 (2010), 65-92.

D.Ashlock and S.Houghten, Ring Optimization of Edit Metric Codes in DNA, ACM International Conference on Bioinformatics and Computational Biology 2010.

J.A.Brown, S.Houghten and D.Ashlock, Side Effect Machines for Quaternary Edit Metric Decoding, 2010 IEEE Symposium on Computational Intelligence in Bioinformatics and Computational Biology, 103-110.

P.Comte, S.Vassil'ev, A.Mahmood, M.R.Gunner, D.Bruce and S.Houghten, Conformational Sampling of Proteins for the Generation of Molecular Ensemble Distributions, 27th Annual Eastern Regional Photosynthesis Conference (2010), poster p.35.

J.A.Brown, S.Houghten and D.Ashlock, Edit Metric Decoding: A New Hope, Canadian Conference on Computer Science and Engineering 2009 (C3S2E09), 233-242.

J.A.Brown, S.Houghten and B.Ombuki-Berman, Genetic Algorithm Cryptanalysis of a Substitution Permutation Network, IEEE Symposium on Computational Intelligence in Cyber Security 2009, 115-121.

D.Ashlock and S.K.Houghten, DNA Error-Correcting Codes: No Crossover, 2009 IEEE Symposium on Computational Intelligence in Bioinformatics and Computational Biology, 38-45.

R.Flack and S.Houghten, "Generation of Good Edit Codes from Classical Hamming Distance Codes", Congressus Numerantium 190 (2008), 97-108.

S.Baker, R.Flack and S.Houghten, "Optimal Variable-Length Insertion-Deletion Correcting Codes and Edit Metric Codes", Congressus Numerantium 186 (2007), 65-80.

P.E.Becker, S.K.Houghten and W.Haas, "A Search for Solvable Weighing Matrices", The Journal of Combinatorial Mathematics and Combinatorial Computing 62 (2007), 65-84.

W.Haas and S.Houghten, A Comparison of Evolutionary Algorithms for Finding Optimal Error-Correcting Codes, Proceedings of the 3rd IASTED Conference on Computational Intelligence (CI 2007), 64-70.

S.K.Houghten, D.Ashlock and J.Lenarz, Construction of Optimal Edit Metric Codes, Proceedings of the 2006 IEEE Workshop on Information Theory (ITW 2006), 259-263.

D.Ashlock and S.K.Houghten, A Novel Variation Operator for More Rapid Evolution of DNA Error Correcting Codes, IEEE Symposium on Computational Intelligence in Bioinformatics and Computational Biology 2005, 1-8.

W.Haas and S.Houghten, Evolutionary Algorithms for Optimal Error-Correcting Codes, Late Breaking Papers, Genetic and Evolutionary Computation Conference (GECCO 2005).

M.J.Letourneau and S.K.Houghten, "Optimal Ternary (11,7) and (14,10) Codes", The Journal of Combinatorial Mathematics and Combinatorial Computing 51 (2004), 159-164.

S.K.Houghten, C.W.H. Lam, L.H. Thiel and J.A. Parker, "The Extended Quadratic Residue Code is the only (48,24,12) Self-Dual Doubly-Even Code", IEEE Transactions on Information Theory 49 (2003), 53-59.

M.J.Letourneau and S.K.Houghten, "Optimal Ternary (10,7) Error-Correcting Codes", Congressus Numerantium 155 (2003), 71-80.

J.L.Wallis and S.K.Houghten, A Comparative Study of Search Techniques Applied to the Minimum Distance Problem of BCH Codes, 6th IASTED International Conference on Artificial Intelligence and Soft Computing, July 2002, 164-169.

S.K.Houghten, L.H.Thiel, J.Janssen and C.W.H.Lam, "There is no (46,6,1) Block Design", Journal of Combinatorial Designs 9 (2001), 60-71.

Y.Ding, S.Houghten, C.Lam, S.Smith, L.Thiel and V.D.Tonchev, "Quasi-symmetric 2-(28,12,11) Designs with an Automorphism of Order 7", Journal of Combinatorial Designs 6 (1998), 213-223.

S.Houghten, C.Lam and L.Thiel, "Construction of (48,24,12) Doubly-Even Self-Dual Codes", Congressus Numerantium 103 (1994), 41-53.

Technical Reports:

S.K.Houghten, D.Ashlock and J.Lenarz, "Bounds on Optimal Edit-Metric Codes", Brock Computer Science Technical Report CS-05-07, July 2005.

P.Becker, S.Houghten and W.Haas, "Investigation of Perfect Ternary Arrays PTA(60,25)", Brock Computer Science Technical Report CS-03-10, October 2003.

Theses:

S.K.Houghten, "On Combinatorial Searches for Designs and Codes", Ph.D. Thesis, Concordia University, 1999.

S.K.Houghten, "Construction of Extremal (48,24,12) Doubly-Even Codes", Master's Thesis, Concordia University, 1993.