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John R. Rose 3A67 |
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Education
BMus: Music,
Immaculate
MS: Computer Science, SUNY at Stony Broo
PhD: Computer Science, SUNY at Stony Broo
Spring 2008 Course
CSCE 492 Capstone Software Engineering Project
Research Interests:
Bioinformatics
Pattern Recognition
Biological
Databases
Distributed
Artificial Intelligence and Multiagent Systems
Data Fusion
Knowledge
Discovery in Databases
Computational
Chemistry
My Link s:
Visit PeroBase (Peromyscus database)
Achieving Comprehensive Mission Robustness (NASA Institute for Advanced Concepts)
Bioinformatics in the CSE department
Center for Information Technology
I am an associate professor of computer science in the Department of Computer Science and Engineering
at the University of South Carolina. Prior to
this position, I was a postdoctoral fellow at the Laboratory for Computational
Chemistry at the Technical University of Munich. Before that, I labored as a
research assistant in data mining in chemical reaction databases at SUNY-Stony
Broo
I am currently a member of IEEE. I am the author of over 50 technical papers
in bioinformatics, machine intelligence, and computational science. My research
interests are in the areas of bioinformatics, normative reasoning and planning,
DAI and multiagent systems, and computational
chemistry. I have conducted research funded by NSF, NIH, NASA, DOD/ONR,
Alexander von Humboldt Foundation, BMFT (German NSF equivalent), as well as the
South
Complete Curriculum Vitae pdf , postscript
Selected Publications
“Evidence for Protein Fragment Homology in
Viral Genome Types”,(with R. Mu
“Gene Family Content-Based Phylogeny of Pro
“Exploiting Belief Locality in Run-Time
Decision-Theoretic Planners”, (with W.H. Tur
“Correlation of Amino Acid Preference and Mammalian
Viral Genome Type”, (with W.H. Tur
“Dblox: a genome-wide test for ancient segmental
duplication,” (with R. Friedman, V. E
“Social Organization in a Software
Agent Community with a Non-zero-Sum Game Interaction Model,” in Regulated
Agent-Based Social Systems,” (with M. Vanninen) G. Lindemann, D. Moldt, M. Paolucci (Eds.) LNAI 2934,
"Non-Random Association of Transposable Elements with
Duplicated Genomic Bloc
"Machine Learning in Chemistry," in Chemoinformatics
– From Data to Knowledge, Gasteiger, Engel
(Eds.), Wiley-VCH, Weinheim, Germany Volume 3,
pp1082-1097, Wiley-VCH, Weinheim, Germany, 2003.
“An Evaluation of Philosophical Agent Architectures for Mission Robustness,”, in Innovative
Concepts for Agent-Based Systems,” (with W. Tur
“Planning with Agents: An
Efficient Approach Using Hierarchical Dynamic Decision Networ
“Integrating Organizational Knowledge for Dynamic Scalable Multiagent Systems” (with W. A. Smith) IEEE KIMAS: Integration of Knowledge Intensive Multi-Agent
Systems, Henry Hexmoor, editor, IEEE, 2003, p.
184-189.
“Parallel Algorithms for Bayesian
Phylogenetic Inference” (with X. Feng, D. Buell, and
P. Waddell) Journal of Parallel and Distributed Computing63, pp 707-718, 2003.
"Massive Deliberation." (with
"Emergent Planning with Philosophical Agents" (with W. Tur
"An Agent Architecture for Long-Term Robustness" (with M. Huhns,
S. Roy, and W. Tur
"Social Organization in a Software Agent Community with a Non-Zero-Sum
Game Interaction Model" (with M Vanninen) in Proceedings
of International Wor
"An Agent Architecture for Comprehensive Mission Robustness" (with
M. Huhns) in Proceedings of the Goddard/JPL Wor
` "Philosophical Agents" (with M. Huhns) IEEE Internet Computing, Vol. 5, No. 3, 2001, pp. 104-106.
"An Information Model for the Representation of Multiple Biological
Classifications" (with Neville Yoon) In: Alexandrov
VN, Dongarra JJ, Juliano
BA, Renner RS, Tan CJK, editors. Computational Science - ICCS 2001:
International Conference, San Francisco, CA, USA, May 2001 Proceesings, Part 1.
"A Biologically-Motivated Approach to Direction Sensitive Velocity-Tuned Motion Detectors" (with Dudley Girard) Proceedings of SCI2000/ISAS2000, Orlando, Florida, 2000, Vol. 6, pp. 173-178.
" Neural Systems for Motion Analysis: Single
Neuron and Networ
"Behavior-based Control for Autonomous Mobile
Robots" (with Terry Huntsberger) Proceedings
of Robotics 2000 Conference
"A Distributed Agent Environment System for Simulating a Naive Sensor/Emitter Model" Proceedings of the 1999 Summer Computer Simulation Conference (SCSC 31), 1999, pp. 359-363.
"Integrated Vision/Control System for Autonomous Planetary Rovers"
(with Terry Hunstberger and Toshiro Kubota) IAPR Wor
"Machine Learning Techniques in Chemistry" Encyclopedia of Computational Chemistry Paul von Rague Schleyer, Editor (John Wiley & Sons, Ltd.), 1998.
"BISMARC: a biologically inspired system for map-based autonomous rover
control" (with Terry Huntsberger) Neural
Networ
"Fuzzy-Face: A Hybrid Wavelet/Fuzzy Self-Organizing Feature Map System
for Face Processing" (with Terry Huntsberger and
Shashidhar Rama
"Characterization of a Reaction Database in Terms of a Lower Bound on
the Number of Reaction Classes" (with Ra
"Computer Simulations of Bimodal Neurons and Networ
"Hierarchical Classification as an Aid to Browsing" (with Caroline Eastman) Informatica 21:49-57, 1997.
"Hierarchical Support for Browsing" (with Caroline Eastman) National
Online Meeting Proceedings pages 91-100, New Yor
"Automatic Extraction of Chemical Knowledge from Organic Reaction Data: Addtion of Carbon-Hydrogen Bonds to Carbon-Carbon Bonds" (with Lingran Chen and Johann Gasteiger) Journal of Organic Chemistry 60:8002-8014, 1995.
"Learning from Reaction Databases" (with Johann Gasteiger, Peter Roese, Ulrich Hondelmann and Wolfgang Witzenbichler) AIPS Conference Proceedings 330: E.C.C.C. 1: Computational Chemistry, F.E.C.S. Conference, F. Bernardi, J. L. Rivail, Editors, AIP Press, Woodbury, NY, pp. 667-685, 1995.
"Extraction of Chemical Knowledge from Organic
Reaction Bata by Automatic Hierarchical Classification and Generalization"
(with Lingran Chen and Johann Gasteiger),
Software-Development in Chemistry Rainer Moll, Ed., Vol. 9, pp. 129-139,
1995 (Springer GmbH & Co.,
"Hierarchical Classification as an Aid to Browsing" (with Caroline Eastman) Second International Symposium on Knowledge Acquisition, Representation and Processing (KARP-95), Abstracts , Pages 105-107, 1995.
"HORACE: An Automatic System for the Hierarchical Classification of
Chemical REactions" (with Johann Gasteiger), ACS Jour. Chemical Information and Computer Science (34):74-90, 1994.
"Automatische Klassifizierung
von Rea
"Hierarchical Classification as an Aid to Database and Hit-List Browsing" (with Johann Gasteiger) Third International Conference on Information and Knowledge Management, Gaithersburg, Maryland, pages 408-414, 1994.
"Hierarchical Classification as an Aid to
Browsing" (with Caroline Eastman) Fifth ASIS SIG/CR Classification Research
Wor
" Knowledge Discovery in Reaction Databases" (with Herbert Gelernter) Proceedings of the Second International Conference on Information and Knowledge Management, pages 714-716, 1993.
"Similarity Concepts for the Planning of Organic Reactions and
Syntheses" (with J. Gasteiger, W. Ihlenfeldt and R. Fic
"Building and Refining a Knowledge Base for Synthetic Organic Chemistry via the Methodology of Inductive and Deductive Machine Learning" (with H. Gelernter and C. Chen) ACS Jour. Chemical Information and Computer Science (30):492-504, 1990.
"ISOLDE: A System for Learning Organic Chemistry through
Induction" (with H. Gelernter) Proceedings of EKAW-89: Third European
Wor
"HYDRA: A Knowledge Acquisition Tool for Experts Systems that Critique
Medical Wor
"Critiquing the Process of Radiological Differential Diagnosis" (with P. Miller, C. Shaw and H. Swett) Computer Methods and Programs in Biomedicine, (22):21- 25, 1986.