Journal Publications
Smith, "RNA Search with Decision Trees and Partial Covariance Models," IEEE Trans. Computational Biology & Bioinformatics, 2009.
Smith "Efficient Non-coding RNA Gene Searches through Classical and Evolutionary Methods," Int. J. Computational Intelligence in Bioinformatics and Systems Biology, Volume 1, No. 1, pp. 42-58, 2009.
Smith & Wiese, "Integrating Thermodynamic and Observed-Frequency Data for Non-coding RNA Gene Search," Trans.
Computational Systems Biology X, pp. 124-142, Corrado Priami ed., Springer, 2008. Smith "Homology Search with Binary and Trinary Scoring Matrices," Int. J. Bioinformatics Research and Applications,
Volume 2, No. 2, pp. 119-131, 2006.
Smith & Frenzel, "Bioinformatics Searches Using a Single-Chip Shared-Memory Multiprocessor," Future Generation Computer Systems,
Volume 22, No. 1-2, pp. 80-87, 2006.
Book Chapter Smith, “Covariance-Model-Based RNA Gene Finding: Using Dynamic Programming versus Evolutionary Computing,” Chapter 7 in Computational Intelligence in Bioinformatics, A. Kelemen, A. Abraham, and Y. Chen eds., Springer-Verlag, 2008. Conference Publications Smith, “RNA Gene Finding with Biased Mutation Operators,” 2007 IEEE Symposium on Computational Intelligence in Bioinformatics and Computational Biology (CIBCB ’07), pp. 268-274, in 2007 IEEE Symposium Series on Computational Intelligence (SSCI '07). Smith, “A Fast Approximate Covariance-Model-Based Database Search Method for Non-coding RNA,” 2007 Int. Symposium on Bioinformatics Research and Applications (ISBRA ’07), LNBI 4463, Springer-Verlag, pp. 270-281. Smith and Wiese, “Improved Covariance Model Parameter Estimation Using RNA Thermodynamic Properties,” Bionetics 2007 (IEEE/ACM sponsored). Smith, “Covariance Searches for ncRNA Gene Finding,” 2006 IEEE Symposium on Computational Intelligence in Bioinformatics and Computational Biology (CIBCB ’06), pp. 320-326. Smith, “A Genetic Algorithms Approach to Non-coding RNA Gene Searches,” 2006 IEEE Systems, Man, and Cybernetics Workshop on Adaptive and Learning Systems (SMCals 2006), pp. 48-53. Smith, “Accelerated Non-coding RNA Searches with Covariance Model Approximations,” 2006 IEEE Congress on Evolutionary Computation (CEC ’06), pp. 9278-9283. Smith, “Truncated Profile Hidden Markov Models,” 2005 IEEE Symposium on Computational Intelligencein Bioinformatics and Computational Biology (CIBCB ’05), pp. 257-261. Smith, “Searching for Protein Classification Features,” 2005 IEEE Congress on Evolutionary Computation (CEC ’05), Volume 1, pp. 648-653. Smith, “Protein Family Classification Using Structural and Sequence Information,” 2004 IEEE Symposium on Computational Intelligence in Bioinformatics and Computational Biology (CIBCB ’04), pp. 168-174. Smith, “Performance of a GALS Single-Chip Multiprocessor,” 2004 International Conference on Parallel and Distributed Processing Techniques and Applications (PDPTA ‘04), Volume 1, pp. 449-454. Smith, “An Asynchronous GALS Interface with Applications,” 2004 IEEE Workshop on Microelectronics and Electron Devices (WMED ‘04), pp. 41-44. Smith and Frenzel, “Bioinformatics Application of a Scalable Supercomputer-on-chip Architecture,” 2003 International Conference on Parallel and Distributed Processing Techniques and Applications (PDPTA ‘03), Volume 1, pp. 385-391. Smith and Frenzel, “Low-latency Multiple Clock Domain Interfacing Without Alteration of Local Clocks,” IEEE 15th Biennial University / Government / Industry Microelectronics Symposium (UGIM ‘03), pp. 342-343. |
Publications |