2009
Caragea, C., Silvescu, A., Caragea, D. and Honavar, V. (2009). Abstraction Augmented Markov Models. In: Proceedings of the NIPS Workshop on Machine Learning in Computational Biology (MLCB).
Xia, J., Caragea, D. and Hsu, W. (2009). Multi Relational Network Analysis Using a Fast Random Walk with Restart. In: Proceedings of the IEEE International Conference on Data Mining (ICDM 2009), Miami, FL. [Short paper. Acceptance rate: 18%]
Xia, J., Caragea, D. and Brown, S.J. (2009). Prediction of alternatively spliced exons using support vector machines. In: International Journal on Data Mining and Bioinformatics (IJDMB). To appear.
Caragea, C., Caragea, D. and Honavar, V. (2009). Learning Link-Based Classifiers from Ontology-Extended Textual Data. In: Proceedings of the 21st International Conference on Tools with Artificial Intelligence (ICTAI 2009), New Jersey. [Regular paper.]
Haridas, M. and Caragea, D. (2009) Exploring Wikipedia and DMoz as Knowledge Bases for Engineering a User Interests Hierarchy for Social Network Applications. In: Proceedings of the 8th International Conference on Ontologies, DataBases, and Applications of Semantics (ODBASE 2009), Algarve, Portugal.[Short paper.]
Caragea, C., Caragea, D. and Honavar, V. (2009). Learning Link-Based Naive Bayes Classifiers from Ontology-Extended Distributed Data. In: Proceedings of the 8th International Conference on Ontologies, DataBases, and Applications of Semantics (ODBASE 2009), Algarve, Portugal.[Short paper.]
Kulkarni, S. and Caragea, D. (2009). Towards Bridging the Web and the Semantic Web. In: Proceedings of the 2009 IEEE/WIC/ACM International Conference on Web Intelligence (WI'09), Milan, Italy. [Regular paper. Acceptance rate: 16%]
Kulkarni, S. and Caragea, D. (2009). Computation of the Semantic Relatedness between Words Using Concept Clouds. In: Proceedings of the International Conference on Knowledge Discovery and Information Retrieval (KDIR), part of the International Joint Conference on Knowledge Discovery, Knowledge Engineering and Knowledge Management (IC3K). Madeira, Portugal. [Short paper. Acceptance rate: 39%]
Caragea, D., Bahirwani V., Aljandal, W. and Hsu, W. (2009). Ontology-Based Link Prediction in the LiveJournal Social Network. In: Proceedings of the Eight Symposium on Abstraction, Reformulation and Approximation (SARA'09), Lake Arrowhead, CA.
Bahirwani, V. and Caragea, D. (2009). Exploring Transcription Patterns in Arabidopsis thaliana. In: Proceedings of the 13th Annual International Conference on Research in Computational Molecular Biology (RECOMB'09), Poster Program. Tucson, AZ.
2008
Xia, J., Caragea, D. and Brown, S.J. (2008). Exploring Alternative Splicing Features using Support Vector Machines. In: Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine (BIBM’08), Philadelphia, PA. [Regular paper. Acceptance rate: 24%]
Koul, N., Bahirwani, V., Caragea, C.,
Caragea, D., and Honavar, V. (2008). Learning from Large Autonomous Data Sources using Sufficient Statistics. In: Proceedings of the International Conference on Web Intelligence (WI 2008), Sydney, Australia. [Short Paper. Acceptance rate: 39%]Harmon, S., DeLoach, S., Robby, Caragea, D. (2008). Leveraging Organizational Guidance Policies with Learning to Self-Tune Multiagent Systems. In: Proceedings of the Second IEEE International Conference on Self-Adaption and Self-Organization (SASO’08). Venice, Italy. [Regular Paper. Acceptance rate: 27%]
Bahirwani, V., Caragea, D., Aljandal, W. and Hsu, H.W. (2008). Ontology Engineering and Feature Construction for Predicting Friendship Links in the Live Journal Social Network. In: Proceedings of the KDD 2008 Second Workshop on Social Network Mining and Analysis (SNA-KDD). Las Vegas, NV, August 2008. ACM Digital Library. [Regular paper. Acceptance rate: 35%]
Aljandal, W.A., Bahirwani, V., Caragea, D., Hsu, W.H. and Weninger, T. (2008). Validation-based normalization and selection of interestingness measures for association rules. In: Proceedings of ANNIE 2008.
Caragea, D. and Honavar, V. (2008). Learning Classifiers from Distributed Data Sources. In: Encyclopedia of Database Technologies and Applications, 2nd Ed. Ferraggine, V.E., Doorn, J.H., and Rivero, L.C. (Eds.).
Honavar, V. and Caragea, D. (2008). Invited Chapter. Towards Semantics-Enabled Infrastructure for Knowledge Acquisition from Distributed Data. In: Next Generation of Data Mining. Eds.: Kargupta, H., Han, J., Yu, P., Motwani, R., and Kumar, V. CRC Press.
Paradesi, M.S.R., Caragea, D., and Hsu, W.H. (2008). Incorporating Graph Features for Predicting Protein-Protein Interactions. In: Biological Data Mining in Protein Interaction Networks. Eds.: X.-L. Li and S.-K. Ng. IGI Publishers. To appear, 2008.
Caragea, D. and Honavar, V. (2008). Knowledge Acquisition from Semantically Heterogeneous Data. In: Encyclopedia of Data Warehousing and Mining, Second Edition, Wang, J. (Ed.). IGI Publishers.
Caragea, D., Cook, D., Wickham, H., and Honavar, V. (2008). Invited Chapter. Visual Methods for Examining SVM Classifiers. In: Visual Data Mining: Theory, Techniques, and Tools for Visual Analytics. Springer, LNCS Volume 4404.
Caragea, D., Kallumadi, S., Dittmer, N., Chellapilla, S., Mutti, N., Feng, C., Pierson, M., Heerman, M., Culbertson, C., Reese, J., Edwards, O. and Reeck, G. (2008) Identifying Specialized Salivary Gland Transcripts in Pea Aphid Using Bioinformatics Tools. Second Annual Arthropod Genomics Symposium: New Insights from Arthropod Genomes, April 11 - 13, 2008, in Kansas City.
Chellapilla, S., Kallumadi, S., Park, Y., Caragea, D. and Brown, S.J. (2008) ArthropodEST: A Pipeline for Automated EST Data Analysis. Poster. Second Annual Arthropod Genomics Symposium: New Insights from Arthropod Genomes, April 11 - 13, 2008, in Kansas City.
Cui, F., Dai, H., Hiromasa, Y., Caragea, D., Sheng,C., Reese, J., Edwards, O. and Reeck, G. (2008) Characterization of an endoplasmic reticulum protein from the salivary glands of the pea aphid, Acyrthosiphon pisum. Poster. Second Annual Arthropod Genomics Symposium: New Insights from Arthropod Genomes, April 11 - 13, 2008, in Kansas City.
Steller, M., Kambhampati, S., and Caragea, D. (2008) Bioinformatic Analysis of ESTs from Termite Castes. Poster. Second Annual Arthropod Genomics Symposium: New Insights from Arthropod Genomes, April 11 - 13, 2008, in Kansas City.
Surabhi, G.C., Kumar, S., Alam, N., Caragea, D., Lu, N., Hurt, A., Johnson, L., Shah, J. (2008) Chronic and transient effects of nitrogen saturation on root processes in a dominant prairie grass Andropogon gerardii: Linking gene expression profiles and ecological responses. Poster presented at Plant Biology 2008, Mérida, Mexico.
2007
Paradesi, M.S.R., Caragea, D., and Hsu, W.H. (2007). Structural Prediction of Protein-Protein Interactions in Saccharomyces cerevisiae. In: Proceedings of the 2007 IEEE 7th International Symposium on BioInformatics and BioEngineering (BIBE'07). Boston, MA.
Bao, J., Caragea, D. and Honavar, V. (2007). Query Translation for Ontology-Extended Data Sources. In: Proceedings of the AAAI 2007 Workshop on Semantic e-Science, Vancouver, Canada. [Acceptance rate: 33%]
Caragea, D., Bao, J. and Honavar, V. (2007). Learning Relational Bayesian Classifiers on the Semantic Web. In: Proceedings of the IJCAI 2007 Workshop on Semantic Web for Collaborative Knowledge Acquisition (SWeCKa 2007). In conjunction with the Twentieth International Joint Conference on Artificial Intelligence, Hyderabad, India, January 2007.
Paradesi, M.S.R., Caragea, D., and Hsu, W.H. (2007). Structural Prediction of Protein-Protein Interactions in Saccharomyces cerevisiae. In: Proceedings of the Annual Meeting of the International Society for Computational Biology (ISMB 2007), Poster Program, Vienna, Austria.
2006
Bao, J., Caragea, D., and Honavar, V. (2006). On the Semantics of Linking and Importing in Modular Ontologies. In: International Semantic Web Conference (ISWC 2006). Athens, Georgia, USA.
Bao, J., Caragea, D., and Honavar, V. (2006). Package-based Description Logics - Preliminary Results (full paper). In: International Semantic Web Conference - Doctoral Consortium (ISWC-DC 2006). Athens, Georgia, USA.
Caragea, D., Zhang, J., Pathak, J., and Honavar, V. (2006). Learning Classifiers from Distributed, Ontology-Extended Data Sources. In: Proceedings of the 8th International Conference on Data Warehousing and Knowledge Discovery (DaWaK 2006). Krakov, Poland. In presss. Lecture Notes in Computer Science. Berlin: Springer.
Bao, J., Caragea, D., and Honavar, V. (2006). Modular Ontologies - A Formal Investigation of Semantics and Expressivity. In: Proceedings of the First Asian Semantic Web Conference (ASWC 2006). September 2-7, 2006, Beijing, China. R. Mizoguchi, Z. Shi, and F. Giunchiglia (Eds.) LNCS 4185, pp. 616–631, Springer-Verlag.
Bao, J., Hu, Z., Caragea, D., Reecy, J., and Honavar, V. (2006). A Tool for Collaborative Construction of Large Biological Ontologies. In: Fourth International Workshop on Biological Data Management (BIDM 2006). Krakov, Poland. . IEEE Press.
Bao, J., Caragea, D., and Honavar, V. (2006). A Distributed Tableau Algorithm for Package-based Description Logics. In: Proceedings of the Second International Workshop on Context Representation and Reasoning (CRR 2006). Riva del Garda, Italy. Vol. In press.. CEUR. To appear.
Caragea, D. and Honavar, V. (2006). Knowledge Discovery from Disparate Earth Data Sources. Second NASA Data Mining Workshop: Issues and Applications in Earth Sciences. Poster session. Pasadena, CA, May 23-24, 2006.
Wickham, H., Caragea, D. and Cook, D. (2006). Exploring High-Dimensional Classification Boundaries. In: Proceedings of the 38th Symposium on the Interface of Statistics, Computing Science, and Applications - Interface 2006: Massive Data Sets and Streams. May 24-27, 2006, Pasadena, CA, USA.
Bao, J., Caragea, D., and Honavar, V. (2006) Towards Collaborative Environments for Ontology Construction and Sharing. In: Proceedings of the 2006 International Symposium on Collaborative Technologies and Systems (CTS 2006). May 14-17, 2006 Las Vegas, Nevada, USA.
Honavar, V. and Caragea, D. (2006). Querying Semantically Heterogeneous Data Sources from a User’s Point of View. 2006 Semantic Technology Conference. San Jose, CA, March 6-9, 2006.
2005
Caragea, D., Cook, D., and Honavar, V. (2005). Visual Methods for Examining Support Vector Machine Results. ISU Technical Report, December 2005.
Caragea, D., Honavar, V., Muslea, I. and Ramakrishnan, R. (Eds.) (2005). Proceedings of the IEEE Workshop on Knowledge Acquisition from Distributed, Autonomous, Semantically Heterogeneous Data and Knowledge Sources in conjunction with The Fifth IEEE International Conference on Data Mining 2005.
Caragea, D., Zhang, J., Bao, J., Pathak, J., and Honavar, V. (2005). Algorithms and Software for Collaborative Discovery from Autonomous, Semantically Heterogeneous Information Sources (Invited paper). In: Proceedings of the 16th International Conference on Algorithmic Learning Theory (ALT 2005). Lecture Notes in Computer Science. Singapore. Vol. 3734. pp. 13-44. Berlin: Springer-Verlag.
Zhang, J., Caragea, D., and Honavar, V. (2005). Learning Ontology-Aware Classifiers. In: Proceedings of the Eight International Conference on Discovery Science (DS 2005), Springer-Verlag Lecture Notes in Computer Science. October 8-11, 2005, Singapore. Vol. 3735, pp. 308-321. Berlin: Springer-Verlag.
Pathak, J., Koul, N., Caragea, D. and Honavar, V. (2005). A Framework for Semantic Web Services Discovery. In: Proceedings of the 7th ACM International Workshop on Web Information and Data Management (WIDM-2005), Bremen, Germany. Pp. 45-50. ACM press.
Caragea, D., Pathak, J., Bao, J., Silvescu, A., Andorf., C., Dobbs, D., and Honavar, V. (2005). Information Integration from Semantically Heterogeneous Biological Data Sources. In: Proceedings of the 3rd International Workshop on Biological Data Management (BIDM 2005), DEXA Workshops 2005, Copenhagen, Denmark. Pp. 580-584. IEEE Computer Society.
Caragea, D., Pathak, J., Bao, J., Silvescu, A., Andorf., C., Dobbs, D. and Honavar, V. (2005). Information Integration and Knowledge Acquisition from Semantically Heterogeneous Biological Data Sources. In: Proceedings of the 2nd International Workshop on Data Integration in Life Sciences (DILS 2005), San Diego, CA. Vol. 3615, pp. 175-190. Berlin: Springer-Verlag.
Caragea, D., Bao, J., Pathak, J. and Honavar, V. (2005). Ontology-based Information Integration using INDUS System. In: The Program of the Eight Annual Bio-Ontologies Meeting (Bio-Ont SIG 2005). Poster Session. Detroit, Michigan.
Caragea, D., Silvescu, A., Pathak, J., Bao, J., Andorf., C., Yan, C., Dobbs, D. and Honavar, V. (2005). Knowledge Acquisition from Autonomous, Distributed, Semantically Heterogeneous Data Sources. In: Proceedings of the Annual Meeting of the International Society for Computational Biology (ISMB 2005), Poster Program, Detroit, Michigan.
Pathak, J., Bao, J., Caragea, D., Silvescu, A., Andorf., C., Yan, C., Dobbs, D. and Honavar, V. (2005). INDUS: A System for Information Integration and Knowledge Acquisition from Autonomous, Distributed, and Semantically Heterogeneous Data Sources. In: The Program of the Annual Meeting of the International Society for Computational Biology (ISMB 2005), Demo Program, Detroit, Michigan.
Caragea, C., Caragea, D. and Honavar, V. (2005). Learning Support Vector Machine Classifiers from Distributed Data Sources. In: Proceedings of the Twentieth National Conference on Artificial Intelligence (AAAI 2005), Student Abstract and Poster Program, Pittsburgh, Pennsylvania. Pp. 1602-1603. AAAI Press.
2004
Caragea, D. (2004). Learning classifiers from distributed, autonomous, semantically heterogeneous data sources. Ph.D. Dissertation, Department of Computer Science, Iowa State University, Ames, IA, 2004.
Caragea, D., Silvescu, A., and Honavar, V. (2004). Invited Paper. A Framework for Learning from Distributed Data Using Sufficient Statistics and its Application to Learning Decision Trees. In: International Journal of Hybrid Intelligent Systems. Vol. 1, No. 2, pp. 80-89.
Caragea, D., Pathak, J., and Honavar, V. (2004). Learning Classifiers from Semantically Heterogeneous Data. In: Proceedings of the Third International Conference on Ontologies, DataBases and Applications of Semantics for Large Scale Information Systems (ODBASE 2004), Springer-Verlag Lecture Notes in Computer Science. October 25-29, 2004, Agia Napa, Cyprus. Vol. 3291, pp. 963-980. Springer-Verlag.
Cook, D., Caragea, D., and Honavar, V. (2004). Visualization for Classification Problems, with Examples Using Support Vector Machines. In: Proceedings of Computational Statistics (COMPSTAT 2004), 16th Symposium of IASC, August 23-27, 2004, Prague, Czech Republic. Pp. 799-806. Springer-Verlag.
Pathak, J., Caragea, D. and Honavar, V. (2004). Ontology Extended Component-Based Workflows: A Framework for Constructing Complex Workflows from Semantically Heterogeneous Software Components. In: Proceedings of the VLDB-04 Second International Workshop on Semantic Web and Databases (SWDB 2004), August 29 – September 3, 2004, Toronto, Canada. Vol. 3372, pp. 41-56. Springer-Verlag.
Caragea, D., Syeda-Mahmood, T. (2004). Semantic API Matching for Automatic Service Composition. In: Proceedings of the 13th International World Wide Web conference on Alternate track papers & posters, Poster session (WWW 2004), May 17-22, 2004, New York, NY, USA. Pp. 436-437. ACM Press.
Jie, B., Yan, C., Caragea, D. and Honavar, V. (2004) Integration of Ontology-Extended Biological Data Sources. Poster presented at Standards and Ontologies for Functional Genomics (SOFG 2004), Philadelphia, PA, October 23-26, 2004.
2003
Caragea, D., Cook, D. and Honavar, V. (2003). Towards Simple, Easy-to-Understand, but Accurate Classifiers. In: Proceedings of the Third IEEE International Conference on Data Mining (ICDM 2003), November 19-22, 2003, Melbourne, FL, USA. Pp. 497-500. IEEE Press.
Reinoso J., Silvescu, A., Caragea, D., Pathak, J., and Honavar, V. (2003). A Federated Query-Centric Approach to Information Extraction and Integration from Heterogeneous, Distributed and Autonomous Data Sources. In: Proceedings of the 2003 IEEE International Conference on Information Reuse and Integration (IRI 2003), October 27-29, 2003, Las Vegas, NV, USA. Pp. 183-191. IEEE Press.
Caragea, D., Silvescu, A., and Honavar, V. (2003). Decision Tree Induction from Distributed Data Sources. In: Proceedings of the Conference on Intelligent Systems Design and Applications (ICDA 2003), August 10-13, 2004, Tulsa, OK, USA. Pp. 341-350. Springer-Verlag.
Caragea, D., Reinoso, J., Silvescu, A. and Honavar, V. (2003). Statistics Gathering for Learning from Distributed, Heterogeneous and Autonomous Data Sources. In: Proceedings of the IJCAI International Workshop on Information Integration on the Web (IIWeb 2003). August 9-15, 2003, Acapulco, Mexico. Pp. 99-104.
2002
Caragea, D. (2002). Learning in Open-Ended Dynamic Distributed Environments. In: Proceedings of the 18th National Conference on Artificial Intelligence (AAAI 2002), Doctoral Consortium Program. Edmonton, Alberta, Canada. Pp. 980. AAAI Press.
Silvescu A., Caragea D., Atramentov A. (2002). Graph Databases. Technical Report. May 2002. [ slides ]
2001
Caragea, D., Silvescu, A., and Honavar, V. (2001). Invited Chapter. Towards a Theoretical Framework for Analysis and Synthesis of Agents That Learn from Distributed Dynamic Data Sources. In: Emerging Neural Architectures Based on Neuroscience. Pp. 547-559. Berlin: Springer-Verlag.
Caragea, D., Cook, D., and Honavar, V. (2001). Gaining Insights into Support Vector Machine Classifiers Using Projection-Based Tour Methods. In: Proceedings of the Conference on Knowledge Discovery and Data Mining (KDD 2001), August 26-29, San Francisco, CA, USA. Pp. 251-256. ACM Press.
2000
Caragea, D., Silvescu, A., and Honavar, V. (2000). Agents that Learn from Distributed Dynamic Data Sources. In: Proceedings of the Workshop on Learning Agents, Agents 2000/ECML 2000. Stone, P. and Sen, S. (Eds.). June 3, Barcelona, Spain.
Caragea, D., Silvescu, A., and Honavar, V. (2000). Towards a Theoretical Framework for Analysis and Synthesis of Distributed and Incremental Learning Agents. In: Proceedings of the Workshop on Distributed and Parallel Knowledge Discovery. ACM SIGKDD International Conference on Knowledge Discovery and Data Mining (KDD 2000). August 20, Boston, MA, U.S.A.
Caragea, D., Silvescu, A., and Honavar, V. (2000). Incremental and Distributed Learning Using Support Vector Machines. In: Proceedings of the17th National Conference on Artificial Intelligence (AAAI 2000), Student Abstract and Poster Program. Austin, TX. Pp. 1067. AAAI Press.
Caragea, D., Silvescu, A., and Honavar, V. (2000). Multi-Agent Learning from Distributed Data Sources. In: Workshop on Multi-Agent learning: Theory and Practice, organized by Gerry Tesauro and Amy Greenwald. International Conference on Machine Learning (ICML 2000), Stanford University.
1997
Agapie, A. and Caragea, D. (1997). Genetic Algorithms, Schemata Construction and Statistics. In: Proceedings of the International Conference on Computational Intelligence, Theory and Applications, 5th Fuzzy Days, Dortmund, Germany. Pp. 16-23.