Bio
Dr. Smith received a B. S. degree in Computer and Systems Engineering from Rensselaer Polytechnic Institute, an M. S. in Electrical Engineering from the University of Connecticut, a Ph. D. in Economics from the State University of New York at Albany, and a second Ph. D. from the University of Idaho in Electrical Engineering.
She has worked in industry for the Pennsylvania Power and Light Company and the Kearfott Division of Singer and for a government laboratory, the Naval Undersea Warfare Center. The work at PP&L was in computer modeling of nuclear reactors, at Singer in inertial navigation system hardware and software design, and at NUWC in passive submarine sonar system design.
Her research interests include hardware for bioinformatics and computational molecular biology applications and asynchronous interface design for globally- asynchronous locally-synchronous (GALS) systems.
Dr. Smith is a Senior Member of the IEEE and member of the IEEE Computer Society, Electron Devices Society, and Computational Intelligence Society. She is a registered Professional Engineer in the State of Idaho.
Publications
- BOOK CHAPTERS:
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Smith, “Covariance-Model-Based RNA Gene Finding: Using Dynamic Programming versus Evolutionary Computing,” Chapter 7 in Computational Intelligence in Bioinformatics, A. Kelemen, A. Abraham, Y. Chen, and Y. Liang, eds., Springer-Verlag, 2007.
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REFEREED JOURNAL PUBLICATIONS:
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Smith, "RNA Search with Decision Trees and Partial Covariance Models," IEEE Trans. Computational Biology & Bioinformatics, Volume 6, No. 3, 2009.
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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.
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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.
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Smith, “Homology Search with Binary and Trinary Scoring Matrices,” International Journal of Bioinformatics Research and Applications, Volume 2, No. 2, pp. 119-131, April 2006.
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Smith and Frenzel, “Bioinformatics Searches Using a Single-Chip Shared-Memory Multiprocessor,” Future Generation Computer Systems, Volume 22, No. 1-2, pp. 80-87, January 2006.
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REFEREED CONFERENCE PUBLICATIONS:
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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).
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Smith, “A Fast Approximate Covariance-Model-Based Database Search Method for Non-coding RNA,” 2007 International Symposium on Bioinformatics Research and Applications (ISBRA '07), LNBI 4463, Springer-Verlag, pp. 270-281.
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Smith and Wiese, “Improved Covariance Model Parameter Estimation Using RNA Thermodynamic Properties,” Bionetics 2007 (IEEE/ACM sponsored).
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Smith, “Covariance Searches for ncRNA Gene Finding,” 2006 IEEE Symposium on Computational Intelligence in Bioinformatics and Computational Biology (CIBCB '06), pp. 320-326.
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Smith, “A Genetic Algorithms Approach to Non-coding RNA Gene Searches,” 2006 IEEE Systems, Man, and Cybernetics Workshop on Adaptive and Learning Systems (SMCALS '06), pp. 48-53.
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Smith, “Accelerated Non-coding RNA Searches with Covariance Model Approximations,” 2006 IEEE Congress on Evolutionary Computation (CEC '06), pp. 9278-9283.
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Smith, "Truncated Profile Hidden Markov Models," 2005 IEEE Symposium on Computational Intelligence in Bioinformatics and Computational Biology (CIBCB ’05), pp. 257-261.
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Smith, “Searching for Protein Classification Features,” 2005 IEEE Congress on Evolutionary Computation (CEC ’05), Volume 1, pp. 648-653.
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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.
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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.
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Smith, “An Asynchronous GALS Interface with Applications,” 2004 IEEE Workshop on Microelectronics and Electron Devices (WMED '04), pp. 41-44.
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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.
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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.
Research
- Dr. Smith does research in the area of bioinformatics hardware and algorithms. Currently, research to improve the speed and efficacy of non-coding RNA gene search algorithms is being undertaken.