The following is a partial list of publications that have arised from the Ecoinformatics Collaboratory's research. More publications and presentations are being added.

	Athanasiadis, I., Villa, F., Rizzoli, A.M. 2007. Enabling knowledge-based software engineering through semantic object-relational mappings. 4th European Semantic Web Conference 2007, accepted.
	Athanasiadis, I., Villa, F., Rizzoli, A.M. 2007. Ontologies, Javabeans and relational databases for enabling semantic linking. IEEE Workshop on Development and Application of Knowledge Based Software Engineering Tools (KASET) 2007. Accepted.
	Rizzoli, A.E., Donatelli, M., Athanasiadis, I.N, Villa, F., Huber, D. In press. Semantic links in integrated modelling frameworks. Mathematics and Computers in Simulation.
	Villa, F., Ceroni, M., Krivov, S. 2007. Intelligent databases enable transparent and sound economic valuation of ecosystem services. Environmental Management. Online version available.
	Villa, F. 2007. A semantic framework and software design to enable the transparent integration, reorganization and discovery of natural systems knowledge. Journal of Intelligent Information Systems. Online version available. Draft: ecoinformatics.uvm.edu/papers/villa_jiis.pdf.
	Krivov S., R. Williams, F. Villa, In press. GrOWL, visual browser and editor for OWL ontologies. Journal of Web Semantics: Services and Agents on the World Wide Web.
	Krivov, S., Villa, F., Williams, R., Wu, X. (2006). On Visualization of OWL ontologies. In: Baker, C.J.O., Cheung, K.H. (eds): Semantic Web: Revolutionizing Knowledge Discovery in the Life Sciences. Springer, New York, NY.
	S. Krivov , F. Villa 2005. Towards an Ontology Based Visual Query System. In: Ludascher, B., Raschid, L., (Eds) Data Integration in Life Sciences, LNBI 3615, Springer
	Villa, F. 2005. Book review: H.G.Natke, Introduction to Multi-Disciplinary Model Building. Ecological Economics 53 (3): 431-432.
	S. Krivov, R. E. Ulanowicz, and A. Dahiya. 2003. Quantitative measures of organization for multiagent systems. BioSystems, 69 :39-54.
	Villa, F., Wilson, M.A., DeGroot, R., Farber, S., Costanza, R., Boumans, R.M.J. 2002. Design of an integrated knowledge base to support ecosystem services valuation. Ecological Economics 41, 445-456.
	Villa, F., McLeod, H. 2002. Frameworks for the calculation of synthetic environmental vulnerability indicators for environmental planning and decision-making. Environmental Management, 29(3): 335-348.
	Boumans, R.M.J., Costanza, R., Villa, F. et al. 2002. Modeling the dynamics of the integrated earth system and the value of global ecosystem services using the GUMBO model. Ecological Economics 41, 529-560.
	Villa, F., Tunesi, L., Agardy, T. 2002. Optimal zoning of marine protected areas through spatial multiple criteria analysis: the case of the Asinara Island National Marine Reserve of Italy. Conservation Biology, 16(2): 515-526.
	S. Krivov, A. Dahiya, and J. Ashraf. 2002. From Equations To Patterns: Logic Based Approach To General System Theory, International Journal of General Systems 31(2): 183-205;
	Villa, F. 2001. Integrating Modelling Architecture: a declarative framework for multi-scale, multi-paradigm ecological modelling. Ecological Modelling, 137: 23-42.
	Villa, F., Costanza, R (2000).: ``Design of multi-paradigm integrating modeling tools for ecological research''. Environmental Modelling and Software 15: 169-177.
	A. Dahiya and S. Krivov. 2000. Study of Pattern Formation by Peafowl using LEM Multi-Agent Simulator InterJournal of Complex Systems Article no. 333 [online: www.interjournal.org
	S. Krivov, A. Dahiya and J. Ashraf. 1999. Lem - Multi Agent Simulator Implemented in Visual Prolog. In: Cognitive Systems Reviews and Previews, J. R. Isaac and K. Batra (Eds.), ICCS '99, Delhi, Phoenix Publishing House Pvt Ltd. Also published by the official web site, Prolog Development centre (PDC) www.visual-prolog.com/vip/articles/LEM/lem-multi.htm
	A. Dahiya, S. Krivov, and J. Ashraf. 1999. A Study of route selection dynamics and local migration of avi-fauna within a real ecosystem using LEM multi-agent simulator. In: Cognitive Systems Reviews and Previews, J. R. Isaac and K. Batra (Eds.), ICCS '99, Delhi, Phoenix Publishing House Pvt Ltd. Also published by the official web site, Prolog Development centre (PDC)
	S. Krivov. 1998. The formal semantic for Jain logic. Arhat Vachana. 10 (4): 9-29.
	S. Krivov. 1997. Eco-Rationality and Jain Karma Theory, Kundakunda Jnanapitha, Indore, India. Arhat Vachana. 9(3): 52-68. (Best paper award by Kunakunda Jnanapith Indore India).
	F.Villa, M.Ceroni, A. Mazza (1996): ``A GIS-based method for multi-objective evaluation of park vegetation.''. Landscape and Urban Planning, 35(4): 203-212.
	F. Villa (1992): New computer architectures as tools for ecological thought. Trends in Ecology and Evolution 7: 179-183.