Summary of Professional Activity and
Publications
DEPARTMENT OF COMPUTER SCIENCE
July 1, 2004 - June 30, 2005
I. Publications, Performances, Exhibits
II. Papers and Presentations Presented at
Professional Meetings
III. Editorships, Offices, and Consultancies
V. Awards for Distinguished Teaching, Research,
or Professional Activities
I. Publications,
Performances, Exhibits
Burg,
Jennifer J.
Collaboration with the Alban Elved
Dance Company, "Une Journée
Abstraite" – a blend of dance, poetry, music, and digital media
introducing concepts of computer science and machine computation.
Cañas,
Daniel A.
None
Fetrow,
Jacquelyn S.
(with
Allen, E. E., John, D. J., Thomas, S. J.) “Heuristics for Dependency
Conjectures in Proteomic Signaling Pathways.” Proceedings of the 43rd Annual
Association for Computing Machinery Southeast Conference (Victor A. Clincy,
ed.),
Fulp,
Errin W.
(with Tarsa, Stephen J.) “Network Firewall Policy Representation using Ordered Sets and Tries.” Proceedings of the IEEE International Symposium on Computer Communications, 2005.
(with Antrosio, Joseph V.) “Malware
Defense Using Network Security Authentication." Proceedings of the Third IEEE International Information Assurance Workshop,
2005.
“Middleware-based connection management
for QoS-enabled networks.” SPIE Information and Technology Communication
Symposium (special session on multimedia communications), Oct 2004.
John,
David J.
(with
Allen, E. E., Fetrow, Jacquelyn S., Thomas, S. J.) “Heuristics for Dependency
Conjectures in Proteomic Signaling Pathways.” Proceedings of the 43rd Annual
Association for Computing Machinery Southeast Conference (Victor A. Clincy,
ed.),
(with Francel, Margaret) “Constructing an even grammar from a 2-element sample.” Proceedings of the 43rd Southeast ACM Conference, ACM Press, 2005, pages 69-74.
Miller, Timothy E.
NOTE: These are the publications of the PHENIX collaboration, of which I am a participating member. I have worked on this experiment helping to collect the data and support the operations of the detector. As is the standard practice of my field (high energy physics), I am listed as an author on these papers (one of about 450 authors) as I have contributed time and effort to the data analyzed in them. However, I feel compelled to clearly delineate that I am not primary author of the papers presented below.
(with Adler, S. S., et al.) “Centrality dependence of direct photon
production in 
GeV Au + Au collisions.”
Submitted to Phys Rev Lett.
http://www.arxiv.org/ e-Print Archive:
nucl-ex/0503003.
(with Adler, S. S., et al.) “Measurement of single electron event
anisotropy in Au + Au collisions at GeV.” Submitted to
Phys Rev C. e-Print Archive: nucl-ex/0502009.
(with Adler, S. S., et al.) “Mid-rapidity direct-photon production in p+p
collisions at GeV.”
Phys Rev D71, 071102 (2005).
(with Adler, S. S., et al.) “Nuclear modification factors for hadrons at
forward and backward rapidities in deuteron-gold collisions at GeV.” Phys Rev Lett 94,
082302 (2005).
(with Adler, S. S., et al.) “Saturation
of azimuthal anisotropy in Au + Au collisions at 
GeV to 200 GeV.”
Submitted to Phys Rev Lett.
e-Print Archive: nucl-ex/0411040.
(with Adler, S. S., et al.) “Production of Phi mesons at mid-rapidity in GeV Au + Au collisions at RHIC.” Submitted to Phys Rev C. e-Print Archive: nucl-ex/0410012.
(with Adler, S. S., et al.) “Formation of dense partonic matter in relativistic nucleus-nucleus collisions at RHIC: Experimental evaluation by the PHENIX collaboration.” Accepted for publication in Nucl Phys A. e-Print Archive: nucl-ex/0410003.
(with Adler, S. S., et al.) “Centrality dependence of charm production
from single electrons measurement in Au + Au collisions at GeV.” Phys Rev Lett 94,
082301 (2005).
(with Adler, S. S., et al.) “Systematic studies of the centrality and
dependence of the 
and 
in heavy ion
collisions at mid-rapidity.” Phys Rev C71,
034908 (2005). e-Print Archive:
nucl-ex/0409015.
(with Adler, S. S., et al.) “Jet structure of baryon excess in Au + Au
collisions at GeV.” Submitted to
Phys Rev Lett. e-Print Archive:
nucl-ex/0408007.
(with Adler, S. S., et al.) “Deuteron and antideuteron production in Au +
Au collisions at GeV.” Phys Rev Lett 94,
122302 (2005).
(with Adler, S. S., et al.) “Double helicity asymmetry in inclusive
mid-rapidity 0 production for polarized p+p collisions at GeV.” Phys Rev Lett 93,
202002 (2004)
(with Adler, S. S., et al.) “Bose-Einstein
correlations of charged pion pairs in Au+Au collisions at GeV.” Phys Rev Lett 93,
152302 (2004)
(with Adler, S. S., et al.) “Measurement of non-random event-by-event
fluctuations of average transverse momentum in GeV Au+Au and p+p collisions.” Phys Rev Lett 93, 092301 (2004)
Pauca,
V. Paúl
(invited) (with Prasad, S., Torgersen, T. C., Plemmons, R. J., van der Gracht, J.) “High-Resolution Imaging Using Integrated Optical Systems.” Int. Journal on Imaging Systems and Technology, Vol. 14, No. 2, pp. 67-74, (2004).
(with Piper, J., Plemmons, R., and Giffin M.) “Object
Characterization from Spectral Data Using Nonnegative Matrix Factorization and
Information Theory.” AMOS Technical Conference,
(with van der Gracht, J., Setty, H., Narayanswamy, R.,
Plemmons, R. J., Prasad, S., and Torgersen, T.) “Iris Recognition with Enhanced
Depth-of-Field Image Acquisition.” Proceedings of the SPIE Defense and Homeland
Security Symposium,
Vol. 5358,
(with Plemmons, R. J., Giffin, M., and Hamada, K.) “Mining
Scientific Data for Non-Imaging Identification and Classification of Space
Objects.” AMOS Technical Conference,
(with Prasad, S., Plemmons, R. J., Torgersen, T. C., and van
der Gracht, J.) “Pupil-Phase Optimization for Extended-Focus Aberration-Corrected
Imaging Systems.” Proceedings of SPIE, Advanced Signal Processing Algorithms,
Architectures, and Implementations XIV, Vol. 5559, pp. 335-345, (2004).
(with Plemmons, R. J., Horvath, M. E., Leonhardt, E. N., Prasad, S., Robinson, S., Setty, H., Torgersen, T. C., van der Gracht, J., Dowski, E., Narayanswamy, R., and Silveira, P. E. X.) “Computational Imaging Systems for Iris Recognition.” Proceedings of SPIE, Advanced Signal Processing Algorithms, Architectures, and Implementations XIV, Vol. 5559, pp. 346-357, (2004).
Plemmons,
Robert J.
(with Prasad, S., Torgersen, T., Pauca, P., and van der Gracht, J.) “High-Resolution Imaging Using Integrated Optical Systems.” invited paper for the International Journal of Imaging Systems and Technology, Vol. 14,
no. 2, pp. 67-75, August 2004.
(with
Catral, M., Han, Lixing, and Neumann, Michael) “On Reduced Rank Nonnegative
Matrix Factorization for Symmetric Matrices.” Linear Algebra and Applications, Vol. 393, pp. 107-126, December
2004.
(with
Horvath, M., Leonhardt, E., Pauca, P., Prasad, S., Robinson, S., Setty, H.,
Torgersen, T., van der Gracht, J., Dowski, E., Narayanswamy, R., and Silveira,
P.) “Computational Imaging Systems for Iris Recognition.” Proceedings of SPIE
49th Annual Meeting, Vol. 5559, pp. 346-357, August 2004.
(with
Pauca, P., Giffin, M., and Hamada, K.) “Unmixing Spectral Data using
Independent Component Analysis and Non-Negative Matrix Factorization.”
Proceedings of AMOS Technical Conference,
(with
Prasad, S., Pauca, V. P., Torgersen, T. C., and van der Gracht, J.)
“Pupil-phase Optimization for Extended Focus, Aberration-Corrected Imaging
System.” Proceedings of SPIE 49th Annual Meeting, Vol. 5559, pp.
335-345, August 2004.
(with
Piper, J., Pauca, P., and Giffin, M.) “Object Characterization from Spectral
Data using Independent Component Analysis and Information Theory.” Proceedings
of AMOS Technical Conference,
September
2004, on CD.
(with
Internationalinear Algebra Society, to be published May 2005.
Thomas,
Stan J.
(with
Allen, E. E., Fetrow, Jacquelyn S., John, D. J.) “Heuristics for Dependency
Conjectures in Proteomic Signaling Pathways.” Proceedings of the 43rd Annual
Association for Computing Machinery Southeast Conference (Victor A. Clincy,
ed.),
Torgersen,
Todd C.
(with Prasad, S., Pauca, V. P., Plemmons, R., van der Gracht, J.) “High-Resolution Imaging Using Integrated Optical Systems.” International Journal on Imaging Systems and Technology, 2004.
(with Plemmons, Robert, Horvath,
Michael, Leonhardt, Emily, Pauca, Paul, Prasad, Sudhakar, Robinson, Stephen, Setty,
Harsha, van der Gracht, Joseph, Dowski, Edward, Narayanswamy, Ramkumar,
and Silveira, Paulo E. X.) “Computational Imaging Systems for Iris
Recognition.” Proceedings of SPIE Annual Meeting,
(with Prasad, S., Pauca, V. P.,
Plemmons, R. J., and van der Gracht, J.) “Pupil-phase Optimization for
Extended-Focus, Aberration-Corrected Imaging Systems.” Proceedings of SPIE Annual Meeting,
Turkett,
William H.
(with Rose, John R., Oroian, Iulia C., Laegreid, William W, and Keele, John) 2005. “Correlation of amino acid preference and mammalian viral genome type.” Bioinformatics 21: 1349 - 1357.
Wong,
Yue-Ling
The Bridge dance
production, MainStage at
The Sixth Sock
dance production, Moving Poets,
II. Papers and Presentations Presented at
Professional Meetings
Burg,
Jennifer J.
Paper and presentation: (with Miller, Tim) "Cluster Computation in Step with Real-Time Dance: An Experiment in Art/Science Collaboration." Proceedings of the 17th International Conference on Parallel and Distributed Computing Systems, Sept. 15-17 2004.
Presentations:
"Computer Science and Art in Digital Media." iDMAa 2005 (the second annual conference of the International Association of Digital Media and Arts), March 16, 2005.
"A New Publication Model for
Open-Access Journals." Given by invitation at the spring 2005 meeting of
ANCHASL (Association of North Carolina Health and Sciences Libraries), April 1, 2005,
Cañas,
Daniel A.
None
Fetrow, Jacquelyn S.
Invited Conference Presentations:
Symposium on Computational Methods
as Aids in Drug Design, April 3-6, 2005,
National Capital Region Biomedical
Engineering and Science Research (Virginia Tech), March 3-4, 2005,
Triangle Biophysics Symposium, Nov
3-4, 2004,
Invited Seminars:
UC
St. Jude’s Children’s Hospital Bioinformatics Seminar Series, Jan 19, 2005.
Fulp,
Errin W.
Paper: "Optimization of Network Firewalls Policies using Directed Acyclical Graphs." (extended abstract) Proceedings of the IEEE Internet Management Conference, 2005.
Presentations:
“Firewall Architectures for High-Speed Networks.” UltraNet 2004, DOE PI Meeting 2004, DOE FermiLab.
“Firewall
Optimization Techniques and Architectures for High-Speed Networks.” Invited presentation at the DOE Pacific
Northwest National Laboratories (Cyber Security Group),
Papers and Presentations:
“Middleware-based connection management for QoS-enabled network.” SPIE Information and Technology Communication Symposium (special session on multimedia communications), Oct 2004.
"Intelligent Malware Defense for Insider Threats in
John,
David J.
“Heuristics for Dependency
Conjectures in Proteomic Signaling Pathways.” March 18, 2005, ACMSE,
(with Allen, Ed) “Dependency
modeling of biological signaling networks using computational algebraic
algorithms.” October 18, 2004, Structural and Computational BioPhysics Journal
Club,
Miller, Timothy E.
17th International Conference on Parallel and Distributed
Computing Systems PDCS-2004 conference.
Paper accepted on the “Fibonacci and Phi” performance titled “Cluster
Computation in Step with Real-Time Dance:
An Experiment in Art/Science Collaboration”.
“Grid Computing 101” talk given on 25 May 2004 at the monthly meeting of
the Winston-Salem Section of the IEEE.
Pauca, V. Paúl
Presentations:
“Novel Methods for the Removal of Non-Uniform Blur.”
March
2005.
“Optical-Digital Approach for Enhanced Biometric Imaging.”
Paper: “Object Characterization from Spectral Data Using
Nonnegative Matrix Factorization and Information Theory.” 2004
AMOS Technical Conference,
Plemmons,
Robert J.
Presentations:
“Low-Rank
Nonnegative Matrix Factorization for Spectral Imaging.” International
Conference on Imaging Science,
“Pupil
Phase Engineering for Extending the Depth of Focus.” Southeastern Optical
Society of
“Nonnegative
Matrix Factorizations and Applications.”
“Computational
Imaging Systems for Iris Recognition.” CIA Workshop on Iris Recognition
Systems,
“High-Resolution
Compound Imaging Systems.” ARDA Workshop on Advanced Imaging,
Thomas,
Stan J.
Paper:
(with John, David, Fetrow, Jacquelyn, Allen, Ed) “Heuristics for Dependency
Conjectures in Proteomic Signaling Pathways.” Proceedings of ACM-SE/05, March
18-20, 2005,
Torgersen,
Todd C.
Presentation: “Pupil-Phase Optimization for Improved
Imaging System Performance.” Optics in the Southeast 2004, November 4-5, 2004,
Turkett,
William H.
Paper and poster presentation: (with Rose, John R.) “Exploiting Belief
Locality in Run-Time Decision Theoretic Planners.” Proceedings of FLAIRS 2005 (
May 15-17, 2005.
Accepted as peer-reviewed short paper and poster presentation.
Wong,
Yue-Ling
None
III. Editorships, Offices, and Consultancies
Burg,
Jennifer J.
Editor,
The IMEJ of Computer-Enhanced Learning, an interactive multimedia
electronic journal published twice a year at
Member
of the board of the International Digital Media and Arts Association
Cañas,
Daniel A.
Editorial
Board IJICS (International Journal of Information and Computer Security)
Fetrow, Jacquelyn S.
Editorial
Board Service for Professional Journal: Proteins: Structure Function and Genetics
Responsibilities: Serve as editorial manager for manuscripts
submitted to journal; serve as reviewer when requested
Board
of Directors, Quantum Bio,
Responsibilities: Participate in monthly Board meetings with
senior management and other Board
members
Fulp,
Errin W.
Proposal
reviewer for the Department of Energy SBIR program, 2005
Proposal
reviewer for the Department of Energy Early CAREER program, 2005
Computer
Security Researcher (responsible for research group consisting of one graduate
and two undergraduate students), Cyber-Security Group, Department of Energy
Pacific Northwest National Laboratories, Richland Washington, May 31 – August
10, 2005
John,
David J.
None
Miller, Timothy E.
None
Pauca, V. Paúl
Co-Chair
of the Advanced Signal Processing Algorithms, Architectures, and
Implementations XIV Conference, International Symposium on Optical Science and
Technology, the SPIE 49th Annual Meeting, Denver, Colorado, August, 2004
Served as research consultant with Targacept Inc. during the Summer and Fall of 2004 for a total of 10 days
Plemmons,
Robert J.
Advisory
Editor, Linear Algebra and Applications
Editorial
Board, Electronic Transactions on Numerical Analysis
Editorial
Board, Applied and Computational Control, Signals, and Circuits
Section
Committee Chair, Society for Industrial and Applied Mathematics
Boeing
Phantom Works,
Air
Force Space Command, one month in summer
Thomas,
Stan J.
None
Torgersen,
Todd C.
None
Turkett, William H.
None
Wong,
Yue-Ling
Creative Director, IMEJ (Interactive Multimedia
Electronic Journal),
Burg,
Jennifer J.
None
Cañas, Daniel A.
None
Fetrow,
Jacquelyn S.
$1,073,242 for Algebraic
and Statistical Models of Redox Signaling (PI), NIH-NIGMS 1R01
4 years GM075304
$242,320 for Profiling of Redox-Sensitive
Signaling Proteins (co-investigator), NIH-NCI 1RO1
2 years GM075304
Fulp,
Errin W.
None
John,
David J.
$1,073,242 for Algebraic
and Statistical Models of Redox Signaling (PI), NIH-NIGMS 1R01
4 years GM075304
Miller, Timothy E.
None
Pauca, V. Paúl
$66,337.65 Computational Methods for
Quantum Molecular Dynamics (PI), National Institute of
Standard and
Technology
$238,180 Innovative Methods for High
Resolution Imaging and Feature Extraction, Army
Research Office
$162,000 Innovative Methods for High
Resolution Imaging ande Feature Extraction (co-PI),
Army Research Office
Plemmons,
Robert J.
$50,000 Pupil
Phase Engineering, ARO Grant Supplement from the CIA, September 2004
$55,000 Space
Situational Awareness, AFOSR – Subcontract from UNM, January 2005
$162,000 PERIODIC
System for Ultra-thin Cameras, ARDA, May 2005
$80,000 Novel
Integrated Optical Systems for Iris Recognition, CIA, Supplement through
DynCorp,
Inc., May 2005
Thomas,
Stan J.
$1,073,242 for Algebraic
and Statistical Models of Redox Signaling (PI), NIH-NIGMS 1R01
4 years GM075304
Torgersen,
Todd C.
$238,180 Innovative Methods for High
Resolution Imaging and Feature Extraction (PI), ARO
Turkett, William H.
None
Wong,
Yue-Ling
None
V. Awards
for Distinguished Teaching, Research, or Professional Activities
Burg, Jennifer J.
The article
Jennifer Burg, Yue-Ling Wong, and Leah McCoy, "Developing a Strategy for Creating and Assessing Digital Media Curriculum Material," The IMEJ of Computer-Enhanced Learning, Volume 6, Number 1, May 2004
was a finalist for award of "Best Education Research Article in an Open Access Journal, 2004" given by the Communication of Research Special Interest Group of the American Educational Research Association.
Cañas,
Daniel A.
The 2004 Teaching and Research Award, given by the Board of Computer Eng. of Costa Rica, for outstanding lifetime contribution in computer science education and research.
Fetrow,
Jacquelyn S.
None
Fulp,
Errin W.
None
John,
David J.
None
Miller,
Timothy E.
None
Pauca,
V. Paúl
None
Plemmons,
Robert J.
Recognized by the
1. Most external funding received
2. Largest single funding award
Thomas,
Stan J.
None
Torgersen,
Todd C.
None
Turkett,
William H.
None
Wong,
Yue-Ling
None