Publications in Peer-Refereed Journals

  • Erho, Nicholas, and Wiese, Kay C. "RNA Gene Discovery and Classification of RNA Secondary Structure Elements", in preparation
  • Shabash Boris and Wiese, Kay C. "jComp.Rna "A Visualization Tool for RNA Secondary Structure Including Pseudo-knots and Comparisons of Multiple Structures", in preparation
  • Shabash Boris, and Wiese, Kay C. (2015). "Diploidy in Evolutionary Algorithms for Dynamic Optimization Problems - A Best-Chromosome-Wins Dominance Mechanism", in preparation.
  • Shabash, Boris, and Wiese, Kay C. (2015). "RNA Visualization: Relevance and the Current State-of-the-art Focusing on Pseudoknots", IEEE/ACM Transactions on Computational Biology and Bioinformatics, accepted subject to revisions.
  • Tsang, Herbert, and Wiese, Kay C. (2015), "A Permutation Based Simulated Annealing Algorithm to Predict Pseudoknotted RNA Secondary Structures", International Journal of Bioinformatics Research and Applications, Vol. 11(4), in print.
  • Tsang, Herbert and Wiese, Kay C. (2015). "A Study of Different Annealing Schedules in SARNA-Predict "A Permutation Based SA-Algorithm for RNA Folding", International Journal of Intelligent Computing and Cybernetics, Vol. 8(2), in print.
  • Tsang, Herbert and Wiese, Kay C. (2010). "SARNA-Predict - RNA Secondary Structure Prediction Using Permutation-based Simulated Annealing", IEEE/ACM Transactions on Computational Biology and Bioinformatics, Vol. 7 (4), October 2010, pp. 727-740, (ISI Impact Factor: 1.842 (5 year, 2013)).
  • Scott F. Smith and Wiese, Kay C. (2008), "Integrating Thermodynamic and Observed-Frequency Data for Non-coding RNA Gene Search", Springer Transactions on Computational Systems Biology, Vol. 10, pp. 124-142.
  • Wiese, Kay C., Deschênes, Alain, and Hendriks, Andrew (2008). "RnaPredict - An Evolutionary Algorithm for RNA Secondary Structure Prediction", IEEE/ACM Transactions on Computational Biology and Bioinformatics, Vol. 5(1), pp. 25-41, (ISI Impact Factor: 1.842 (5 year, 2013)), Featured Article of Vol. 5 (1)).
  • Ebhardt, H. Alexander, Wiese, Kay C., and Unrau, Peter J. (2006). "Ebbie: Automated Analysis and Storage of Small RNA Cloning Data Using a Dynamic Web Server", BMC Bioinformatics, 7:185, 18 pages, (ISI Impact factor: 3.491 (5 year, 2013)).
  • Wiese, Kay C. and Hendriks, Andrew (2006). "Comparison of P-RnaPredict and Mfold "Algorithms for RNA Secondary Structure Prediction", Bioinformatics Vol. 22 (8), pp. 934-942 (Acceptance Rate: ~20%, ISI Impact Factor: 6.968 (5 year, 2013)).
  • Wiese, Kay C. (2006). Review of "The Ten Most Wanted Solutions in Protein Bioinformatics", BMC BioMedical Engineering OnLine, 2006, 5:1, (ISI Impact Factor: 1.872 (5 year, 2013)).
  • Wiese, Kay C., Hendriks, Andrew, Deschênes, Alain, and Youssef Belgacem B. (2005). "P-RnaPredict - A Parallel Evolutionary Algorithm for RNA Folding: Effects of Pseudorandom Number Quality", IEEE Transactions on NanoBioscience, Vol. 4 (3), pp. 219-227, (Acceptance Rate: ~29%, ISI Impact Factor: 1.842 (2013)).
  • Wiese, Kay C., Glen, Edward. and Vasudevan, Anna (2005). "jViz.Rna - A Java Tool for RNA Secondary Structure Visualization", IEEE Transactions on NanoBioscience, Vol. 4(3), pp. 212-218, (Acceptance Rate: ~29%, ISI Impact Factor: 1.842 (5 year, 2013)).
  • Wiese, Kay C. and Glen, Edward (2003). "A Permutation-Based Genetic Algorithm for the RNA Folding Problem: A Critical Look at Selection Strategies, Crossover Operators, and Representation Issues", BioSystems - Special Issue on Computational Intelligence in Bioinformatics, Vol. 72 (1-2), Gary Fogel and David Corne (Eds.), Elsevier Science, pp. 29-41, (Acceptance Rate: ~45%, ISI Impact Factor: 1.584 (5 year, 2013)).
  • Wiese, Kay C. and Goodwin, Scott D. (2001). "Keep-Best Reproduction: A Local Family Competition Selection Strategy and the Environment it Flourishes in", Constraints, Vol. 6 (4), pp. 399-422, (Acceptance Rate: ~33%, ISI Impact Factor: 1.151 (5 year, 2013)).
  • Snider, Bonnie S., Asmundson, Gord J.G., and Wiese, Kay C. (2000). "Automatic and Strategic Processing of Threat Cues in Patients With Chronic Pain: A Modified-Stroop Evaluation", Clinical Journal of Pain, Vol. 16, pp.144-154 (ISI Impact factor: 3.148 (5 year, 2013).