Recent papers
- Building and validating geographically refined hurricane wind risk models for residential structures Natural Hazards Review, 10.1061/(ASCE)NH.1527-6996.0000130, 2013. (with J. Salazar, L. Duenas-Osorio and R. Stein)
- How Risk Perceptions Influence Evacuations from Hurricanes and Compliance with Government Directives, Policy Studies Journal, 41(2):319-342, 2013.
(with R. Stein, B. Buzcu-Guven, L. DueƱas-Osorio, and D. Kahle)
- Model averaging strategies for structure learning in Bayesian networks with limited data, BMC Bioinformatics 13(Suppl 13):S10, 2012.
(with B. M. Broom and K.A Do)
- Graph-based signal integration for high-throughput phenotyping, BMC Bioinformatics 13(Suppl 13):S2, 2012.
(with J.R. Herskovic, T. Cohen, P. A Bozzo-Silva, C. F. Bearden and E. V. Bernstam)
- Engineering-Based Hurricane Risk Estimates and Comparison to Perceived Risks in Storm-Prone Areas,
Natural Hazards Review 13(1):45-56, 2012. (with L. Duenas-Osorio, R. Stein, B. Guven).
- New predictive models of heart failure mortality using time-series measurements and ensemble models,
Circulation: Heart Failure 4(4):456-462, 2011. (with V. Subramanian, A. Deswal, and D.Mann).
- MEDRank: using graph-based concept ranking to index biomedical texts, International Journal of Biomedical Informatics, 80(6):431-441, 2011. (with J. Herskovic, T. Cohen, S. Iyengar, J. W. Smith and E. Bernstam).
- New components of the Dictyostelium PKA pathway revealed by Bayesian analysis of
expression data, BMC Bioinformatics 11:163, 2010. (with A. Parikh, E. Huang, C. Dinh,
B. Zupan, A. Kuspa, G. Shaulsky).
- Performance assessment of topologically diverse power systems subjected to hurricane
events, Reliability Engineering and System Safety, 95(4):323-336, 2010.http://www.aaai.org/ojs/index.php/aimagazine/article/view/2293(with L. Duenas-
Osorio, J. Winkler and R. Stein).
- Who evacuates when hurricanes approach: the role of risk, information and location,
Social Science Quarterly 91:3, 2010. (with L. Duenas-Osorio and R. Stein).
- Structural Organization of Functional Networks from EEG Signals during Motor Learning
Tasks. Intl. Jnl. Bifurcation and Chaos 20(3): 905-912 (2010). (with Fabrizio de Vico Fallani,
Farhan Baluch, Laura Astol_,George Zouridakis, and Fabio Babiloni).
- AI Theory and Practice: a discussion of the hard challenges and opportunities ahead, AI Magazine, 31(3):103-114, 2010. (with E. Horvitz, L. Getoor, C. Guestrin, J. Hendler, H. Kautz, J. Konstan and M. Wellman).
Learning metabolic and regulatory networks from data
- Learning robust cell signaling models from high-throughput proteomic data, M. Koch, B. Broom and D. Subramanian, in the International Journal of Bioinformatics Research and Applications, Vol 5, No. 3, 2009.
- A search based approach for the Bayesian inference of the T-cell signaling network, M. Koch, B. Broom and D. Subramanian, in Proceedings of BIOT 2007.
- Computational methods for learning bayesian networks from high-throughput biological data, B. M. Broom and D. Subramanian, in edited by K.A. Do and P. M. Mueller and M. Vanucci, Cambridge University Press, 2006.
- Predicting altered pathways using extendable scaffolds, B. M. Broom, T. J. McDonnell and D. Subramanian, in International Journal of Bioinformatics Research and Applications, 2006.
- Predicting altered pathways using extendable scaffolds, B. M. Broom, T. J. McDonnell and D. Subramanian, in BIOT 2005.
Biomarkers for colorectal cancer
- Serum protein
fingerprints can accurately distinguish patients with colorectal
cancer from patients with benign colonic pathology,” Gut
2008;57(S1):A149 (with V. Subramanian, S. Krishna, M. Farthing,
R. Pollok)
- “Serum protein fingerprints can accurately distinguish
patients with inflammatory bowel disease from patients with
clinically relevant differential diagnosis,” Gut
2007;56(S3):A66 (with V. Subramanian, C. Evans, D. Kumar,
S. Krishna, R. Pollok)
- “Serum protein signatures determined by mass spectrometry
(SELDI-ToF) can accurately distinguish Crohn’s disease
from ulcerative colitis,” Gut 2007:56,A120-121 (with
V. Subramanian, S. Krishna, M. Farthing, R. Pollok)
- “Serum protein signatures determined y mass spectrometry
(SELDI-ToF) accurately identifies patients with inflammatory
bowel disease by support vector machines with linear
kernels,” Gastroenetreology 130:4(S2),385,2006 (with
V. Subramanian, S. Krishna, D. Agranoff, R. Pollok)
- “Serum protein signatures determined by mass spectrometry
(SELDI-ToF) accurately identifies patients with inflammatory
bowel disease,” Gut 2006:55(S2),A82 (with
V. Subramanian, S. Krishna, D. Agranoff and R. Pollok)
Forecasting International Conflict
- Forecasting international conflict in the 21st century, D. Subramanian and R. Stoll, in Programming for Peace: Computer-aided methods for international conflict resolution and prevention, 2005.
- Four Way Street? Saudi Arabia's Behavior among the superpowers, 1966-1999, R. Stoll and D. Subramanian, James A Baker III Institute for Public Policy Series, 2004.
- Forecasting international conflict in the 21st century, D. Subramanian and R. Stoll, in Proc. of the Symposium on Computer-aided methods for international conflict resolution, 2002.
Adaptive compilers
- ACME: Adaptive compilation made efficient, K. Cooper and A. grosul and T. J. harvey and S. Reeves and D. Subramanian and L. Torczon and T. Waterman, LACSI Symposium 2005.
- Exploring the structure of compilation sequences using randomized serach algorithms, K. Cooper and A. grosul and T. J. Harvey and S. Reeves and D. Subramanian and L. Torczon and T. Waterman, LACI Symposium, 2004.
- Compilation order matters , Technical
Report, January 2002, Rice University (with K. Cooper, L. Torczon and
T. Harvey).
- Adaptive optimizing compilers
for the 21st century, Journal of Supercomputing, 2002 (to
appear). Also appeared in the Proceedings of the LACSI
symposium, Fall 2001. Here's the talk at the LACSI symposium, Fall 2001
(with K. Cooper and L. Torczon).
- Optimizing for reduced code
space using genetic algorithms, ACM SIGPLAN Workshop on Languages,
Compilers, and Tools for Embedded Systems (LCTES), Atlanta, GA, 1999,
will appear as an issue of SIGPLAN Notices) (with P. Schielke and
K. D. Cooper).
- An experimental
evaluation of list scheduling, Technical report, September 1998,
Rice University (with K. Cooper and P. Schielke).
Modeling human learning on visualmotor tasks
- Tracking
the evolution of learning on a visualmotor task Devika
Subramanian and Sameer Siruguri, Technical report TR02-401, Department
of Computer Science, Rice University, August 2002.
- Tracking the evolution of learning on a
visualmotor task Sameer Siruguri, Master's thesis under the
supervision of Devika Subramanian, May 2001.
- Inducing
hybrid models of learning from visualmotor data , Proceedings of
the 22nd Annual Conference of the Cognitive Science Society,
Philadelphia, PA, 2000.
- Modeling individual
differences on the NRL Navigation task, Proceedings of the 20th
Annual Conference of the Cognitive Science Society, Madison, WI, 1998
(with D. Gordon).
- A cognitive model of
learning to navigate, Proceedings of the 19th Annual
Conference of the Cognitive Science Society, Stanford, CA, 1997 (with
D. Gordon).
- Cognitive modeling
of action selection learning, Proceedings of the 18th Annual
Conference of the Cognitive Science Society, San Diego, 1996 (with
D. Gordon)
Reinforcement learning in non-stationary environments
- A
new approach to routing using dynamic metrics, in Proceedings of
INFOCOM 1999 (with P. Druschel and J. Chen).
-
An efficient multi-path forwarding method , in Proceedings of
INFOCOM 1998, (with P. Druschel and J. Chen).
- A simple,
practical, distributed multipath routing algorithm , TR98-320,
July 1998, Rice University (with J. Chen and P. Druschel).
- Ants and
reinforcement learning: a case study in routing in dynamic networks
, TR96-259, Rice University (updated July 1998) (with J. Chen and
P. Druschel).
- Ants and
reinforcement learning: a case study in routing in dynamic networks
, in Proceedings of IJCAI, 1997, (with P. Druschel and J. Chen).
Bioinformatics
- Predicting protein-ligand
interactions from primary structure,
January 2002. Also Technical Report
TR02-398, Rice University.
- Statistical methods for the
objective design of screening procedures for macromolecular
crystallization, Acta Crystallographica D56:817-827, 2000
(with J. Rosenberg, B. G. Buchanan, D. Hennessey, P. Wilkocz).
- Preliminary tests of machine learning
tools for the analysis of biological macromolecular crystallization
data, Tech Report ISL-94-17, Department of Computer Science,
University of Pittsburgh, 1994 (with J. Rosenberg, B. Buchanan,
P. Wilkocz, K. Chandrasekhar, V. Gopalakrishnan, and D. Hennessy).
- Induction of
rules for biological macromolecule crystallization,
Proceedings of the 2nd International Conference on Intelligent Systems
for Molecular Biology, pp 179-187, 1994 (with J. Rosenberg,
B. Buchanan, V. Gopalakrishnan, and D. Hennessy).
- The crystallographer's assistant,
Proceedings of AAAI, 1994 (with B. Buchanan, V. Gopalakrishnan and
D. Hennessey).
Mobile robotics
Complexity of Random 3-SAT
-
Random 3-SAT: the plot thickens, in Constraints , 2002 (to
appear) (with M. Vardi, D. Demopolous, A. San Miguel Aguirre,
C. Coarfa).
- Random 3-SAT: the plot thickens , preliminary
version in Proceedings of the International Conference on Constraint
Programming, 2000 (with M. Vardi, D. Demopolous, A. San Miguel
Aguirre, C. Coarfa)
Conceptual design of electromechanical systems
- A compositional theory of opto-mechanical
synthesis (submitted to Research in Engineering Design),
November 2001 (with R. Goldman).
- Kinematic synthesis
using configuration spaces, Research in Engineering Design,
7:193-213, 1995 (with Ed Wang).
- Intelligent tools for conceptual design
and simulation of opto-electro-mechanical devices,
Proceedings of the NSF Design and Manufacturing Grantees
Conference, ASME Press, 1994 (with Ed Wang).
- Artificial
intelligence and conceptual design, Proceedings of IJCAI
(invited paper), pp 800-809, 1993.
-
Constraint-based kinematic synthesis, Proceedings of the 7th
International Workshop on Qualitative Reasoning about Physical
Systems, pp 228-239, 1993 (with Ed Wang).
- Conceptual synthesis of mechanisms
from qualitative specifications of behavior , Technical report,
1992 (with Ed Wang, Scott Stoller and Arjun Kapur).
Bounded optimality
- Provably bounded-optimal
agents, Journal of AI Research, 2:575-609, 1995 (with S.
J. Russell).
- Provably bounded optimal agents,
Proceedings of IJCAI, pp 338-344, 1993 (with S. Russell and R.
Parr).
- Constructing bounded
optimal systems, Proceedings of the AAAI Spring Symposium on AI
approaches to NP-hard problems, pp 144-148, 1993 (with S. Russell).
- On provably RALPHs (rational agents with
limited performance hardware), Computational Learning and
Cognition, Eric Baum (ed), SIAM Press, pp 197-216, 1992 (with S.
Russell).
Theoretical Foundations of AI algorithms
- The common
order-theoretic properties of version spaces and ATMSs,
Artificial Intelligence, 1997 (with C. Gunter and T. Ngair).
- Sets as
anti-chains, ASEAN 96, also appears in LNCS, Springer Verlag, 1996
(with C. Gunter and T. Ngair).
-
The common order-theoretic properties of version spaces and ATMSs,
Proceedings of AAAI, pp 500-505, 1991 (with C. Gunter, T. Ngair,
P. Pannangaden).
Intelligent agents for information access
- Information
retrieval, information structure and information agents, ACM
Transactions on Information Systems, Vol 15, Number 1, 1997 (with
D. Rus).
-
Customizing multimedia information access, ACM Computing Surveys
(special issue on multimedia systems), 1996 (with D. Rus).
- Modular architectures for information
agents, Proceedings of the AAAI Spring Symposium, pp 79-86,
1994 (with D. Rus).
-
Multi-media RISSC informatics: retrieving information with simple
structural components, Proceedings of the ACM Conference on
Information and Knowledge Management, ACM Press, pp 283-294, 1993
(with D. Rus).
- Information
agents for multi-media environments, Proceedings of the Workshop
on Hypermedia at the ACM Conference on Information and Knowledge
Management, pp 1-5, 1993 (with D. Rus).
Representational issues in machine learning
- The relevance of
relevance , Artificial Intelligence, Vol 97 (1-2), pp 1-5, 1997
(with R. Greiner and J. Pearl).
- Shifting
vocabulary bias in speedup learning, Machine Learning,
20:155-191, 1995.
- Adam Webber, Optimization of functional
programs by grammar thinning, ACM Transactions on Programming Languages,
Vol 17, No. 2, pp. 293-330, 1995. (Ph.D. thesis under Devika Subramanian)
- Proceedings of the AAAI Fall Symposium on
Relevance, AAAI Press, 1994 (co-edited with R. Greiner).
Appeared as a special issue of Artificial Intelligence,
(Volume 97, No 1-2, 1997.
- The design of provably good,
distribution-sensitive speedup learning algorithms ,
unpublished manuscript, 1994.
- Issues in
the design of provably good, distribution-sensitive, speedup learning
algorithms, Proceedings of the International Machine Learning
Workshop on Knowledge Compilation and Speedup Learning, pp 147-154,
1992.
- Estimating
utility and the design of provably good EBL algorithms,
Proceedings of the 9th International Conference on Machine Learning,
pp 426-435, 1992 (with S. Hunter).
- An overview of current research on
knowledge compilation and speed-up learning , Proceedings of the
International Machine Learning Workshop on Knowledge Compilation and
Speed-up Learning, 1992 (with P. Tadepalli and D. Fisher).
- Proceedings of the
International Machine Learning Workshop on Knowledge Compilation and
Speed-up Learning, 1992 (with P. Tadepalli and D. Fisher).
- The computational impact of biases in
learning, Proceedings of the International Machine
Learning Workshop on Inductive Biases, pp 5-15, 1992 (with S. Hunter).
- Estimating utility and the design of
provably good EBL algorithms (extended abstract),
Proceedings of AAAI Spring Symposium on Knowledge Assimilation, pp
131-140, 1992 (with S. Hunter).
- The utility of EBL in recursive domain
theories, Proceedings of AAAI, AAAI/MIT Press, pp
942-949, 1990 (with R. Feldman).
- A theory of justified
reformulations, Change of Representation and Inductive
Bias, Paul Benjamin (ed), Kluwer Academic Press, pp 147-168,
1990.
- Abstractions and approximations: some
challenges, Proceedings of the AAAI Workshop on the
Automatic Generation of Abstractions and Approximations, pp 7-8,
1990.
- Mutual constraints on representation and
inference , Research on Machine Learning, Meta-Logics and
Inference, Pavel Brazdil (ed), Kluwer Academic Press, pp 85-106,
1989 (with S.J. Russell).
- A theory of
justified reformulations , Proceedings of the 7th International
Machine Learning Workshops, pp 434-438, 1989.
-
Representational issues in machine learning, Proceedings of the
7th International Machine Learning Workshop, pp 426-429, 1989.
- A theory of justified
reformulations , Ph.D. thesis, Stanford University, March 1989.
- Knowledge level learning: an alternative
view, Proceedings of the AAAI Spring Symposium on
Explanation Based Learning, pp 196-200, 1988 (with D.E. Smith).
- Mutual constraints on representation and
inference, Proceedings of the International Workshop on
Machine Learning, Meta-Logics and Inference, pp 167-182, 1988
(with S.J. Russell).
- The relevance of irrelevance,
Proceedings of IJCAI , pp 416-422, 1987 (with M.R. Genesereth).
- Reformulation, Proceedings of
the AAAI/SIGART Workshop on Knowledge Compilation, pp 119-121,
1986 (with M.R. Genesereth).
- Factorization in experiment
generation, Proceedings of AAAI , Philadelphia, pp
518-522, 1986 (with J. Feigenbaum).
Designing hybrid deliberative/reactive systems
- Subjective
Ontologies, Proceedings of the AAAI Spring Symposium on Planning and
Learning in Uncertain, Unpredictable Environments, pp 130-135, March
1990, (with J. Woodfill).
- Making
Situation Calculus Indexical, Proceedings of the First International
Conference on Principles of Knowledge Representation and Reasoning,
Morgan Kaufmann, pp 467-474, May 1989, (with J. Woodfill).
- Making Situation Calculus Indexical
(preliminary version), Proceedings of the AAAI Spring Symposium on
Limited Rationality, pp 101-105, March 1989, (with J. Woodfill).
Solving large Markov decision problems
- Solving safety problems efficiently,
Technical report, 1998, Rice University (with S. Hunter)
Multi-strategy learning
-
Comparison of action selection learning methods, Proceedings of
the 3rd International Workshop on Multistrategy Learning, Harpers
Ferry, pp 95-102, 1996 (with D. Gordon)
- A
multi-strategy learning scheme for knowledge assimilation in embedded
agents, Informatica, 17:8-15, 1993 (with D. Gordon).
- A
multi-strategy approach to assimilating advice in embedded agents, Proceedings of the 2nd
International Workshop on Multi-Strategy Learning, pp 218-233, 1993
(with D. Gordon).