Dr. Scott F. Smith

Technical Co-Chair (with Dr. Kay C. Wiese of Simon Fraser University), 2007 IEEE Symposium on Computational Intelligence in Bioinformatics and Computational Biology (CIBCB '07)

Co-Chair (with Dr. Madhu Chetty of Monash University), 2007 IEEE Congress on Evolutionary Computation (CEC '07) - Special Session on Evolutionary Computation in Bioinformatics and Computational Biology

Co-Chair (with Dr. Alioune Ngom of the University of Windsor), 2007 Bionetics conference - Bioinformatics Track

Technical Co-Chair (with Dr. L. Gwenn Volkert of Kent State University), 2006 IEEE Symposium on Computational Intelligence in Bioinformatics and Computational Biology (CIBCB '06)

Co-Chair (with Dr. Kay C. Wiese of Simon Fraser University), 2006 IEEE Congress on Evolutionary Computation (CEC '06, part of WCCI '06)- Special Session on Evolutionary Computation in Bioinformatics and Computational Biology

Finance Chair, 2006 IEEE Non-Volatile Memory Technology Symposium (NVMTS '06)

Proceedings Chair, 2005 IEEE Symposium on Computational Intelligence in Bioinformatics and Computational Biology (CIBCB '05)

Journal Editorial Boards:

Journal of Computational Intelligence in Bioinformatics

Source Code for Biology and Medicine

Refereed Journal Publications:

Scott F. Smith, “Efficient Non-coding RNA Gene Searches through Classical and Evolutionary Methods,” Journal of Computational Intelligence in Bioinformatics, Volume 1, No. 1, pp. TBD, March 2007 (in press).

Scott F. 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.

Scott F. Smith and James F. Frenzel, “Bioinformatics Searches Using a Single-Chip Shared-Memory Multiprocessor,” Future Generation Computer Systems, Volume 22, No. 1-2, pp. 80-87, January 2006.

Refereed Conference Publications:

Scott F. 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, ISBN 3-540-72030-0.

Scott F. 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), ISBN 1-4244-0698-6.

Scott F. Smith, “Protein Homology Search Using Hidden Markov Model Parameters and Genetic Algorithms,” 2007 International Conference on Computational Intelligence (CI ’07), pp. 58-63, ISBN 978-0-88986-671-3.

Scott F. Smith, "Covariance Searches for ncRNA Gene Finding," 2006 IEEE Symposium on Computational Intelligence in Bioinformatics and Computational Biology (CIBCB ’06), pp. 320-326, ISBN 1-4244-0623-4.

Scott F. 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, ISBN 1-4244-0166-6.

Scott F. Smith, “Accelerated Non-coding RNA Searches with Covariance Model Approximations,” 2006 IEEE Congress on Evolutionary Computation (CEC '06 part of WCCI '06), pp. 9278-9283, ISBN 0-7803-9487-9.

Scott F. Smith, "Acceleration of Covariance Models for Non-coding RNA Search," 2006 International Conference on Bioinformatics and Computational Biology (BIOCOMP ’06), pp. 148-153, ISBN 1-60132-002-7.

Scott F. Smith, "Truncated Profile Hidden Markov Models," 2005 IEEE Symposium on Computational Intelligence in Bioinformatics and Computational Biology (CIBCB ’05), pp. 257-261, ISBN 0-7803-9387-2.

Scott F. Smith, “Searching for Protein Classification Features,” 2005 IEEE Congress on Evolutionary Computation (CEC ’05), Volume 1, pp. 648-653, ISBN 0-7803-9363-5.

Scott F. Smith, "Using Hydrophobicity Correlation Measures for Protein Family Classification,” 2005 International Conference on Mathematics and Engineering Techniques in Medicine and Biological Sciences (METMBS ’05), pp. 53-58, ISBN 1-932415-83-1.

Scott F. 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, ISBN 0-7803-8728-7.

Scott F. Smith, "A Scalable Coprocessor for Bioinformatic Sequence Alignments," 2004 International Conference on VLSI (VLSI '04), pp. 303-308, ISBN 1-932415-41-6.

Scott F. 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, ISBN 1-932415-23-8.

Scott F. Smith, "An Asynchronous GALS Interface with Applications," 2004 IEEE Workshop on Microelectronics and Electron Devices (WMED '04), pp. 41-44, ISBN 0-7803-8369-9.

Scott F. Smith and James F. Frenzel, "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, ISBN 1-892512-41-6.

Scott F. Smith and James F. Frenzel, "Low-latency Multiple Clock Domain Interfacing Without Alteration of Local Clocks," 2003 IEEE University / Government / Industry Microelectronics Symposium (UGIM '03), pp. 342-343, ISBN 0-7803-7972-1.

Scott F. Smith, "The Advanced Encryption Standard on an Asynchronous Shared-memory Multiprocessor," 2003 International Conference on VLSI (VLSI '03), pp. 379-381, ISBN 1-932415-10-6.

Scott F. Smith, "Similarity Searches in Computer Security," 2003 Conference on Security and Management (SAM '03), Volume 2, pp. 658-662, ISBN 1-932415-17-3.

Invited Talks:

"RNA Gene Finding," 30 September 2006, University of Guelph Biomathematics and Biostatistics Workshop.

"Hidden Markov Models," 10 April 2006, Boise State University Bioinformatics Workshop.

"Sequence Database Search Algorithms and Acceleration," 09 August 2005, Idaho IDeA Network of Biomedical Research Excellence (INBRE) Conference.

"Hardware Acceleration of Sequence Analysis Algorithms," 27 September 2004, Boise State University Bioinformatics Workshop

"The Middle Path: Globally-Asynchronous Locally-Synchronous (GALS) Design," 21 May 2003, IEEE Computer Society, Boise Section

Past Courses:

COMPE 597 - Special Topics: Biological Sequence Analysis and Computation (Fall 2005)

COMPE 662 - Advanced Computer Architecture (Was COMPE 562, Fall 2003, Spring 2006, Fall 2007)

COMPE 661 - Digital Systems Testing and Testable Design (Was COMPE 561, Fall 2002, Fall 2004, Fall 2006)

EE 497/597 - Special Topics: Buses and Interfaces (Fall 2001)

ECE 433/533 - Embedded and Portable Computing Systems (All Spring semesters 2001 through 2007)

ECE 322 - Microelectronic Circuits (Spring 2007, Fall 2007)

ECE 322L - Microelectronic Circuits Lab (Spring 2007, Fall 2007)

EE 332 - Microprocessors (All semesters Fall 2000 through Fall 2004, Fall 2006)

EE 332L - Microprocessors Lab (Fall 2000, Spring 2001, Fall 2001, Fall 2004, Fall 2006)

ENGR 240 - Introduction to Electric Circuits (Fall 2000, Spring 2005)

EE 223 (now EE 350L) - Signals and Systems Lab (Fall 1999, Spring 2000)

Planned Future Courses:

ECE 433/533 - Embedded and Portable Computing Systems (Spring 2008)

ECE 322 - Microelectronic Circuits (Spring 2008)

ECE 322L - Microelectronic Circuits Lab (Spring 2008)

Professional Service:

Member of the Bioinformatics and Bioengineering Technical Committee of the IEEE Computational Intelligence Society

Micro-Mouse Chair for IEEE Region 6 Northeast Area

Arrangements Chair for IEEE Computer Society Boise Chapter

This page was last updated on 18 January 2008.