NCEAS Project 6680

Science Environment for Ecological Knowledge (SEEK) (Hosted by NCEAS)

  • Matthew B. Jones
  • James H. Beach
  • Bertram Ludaescher
  • William K. Michener
  • Mark P. Schildhauer

SEEK Web site

ActivityDatesFurther Information
Working Group2nd—3rd February 2003Participant List  
Postdoctoral Fellow1st May 2003—30th April 2005Participant List  
Working Group22nd—26th October 2003Participant List  
Working Group23rd—28th January 2004Participant List  
Working Group3rd—4th June 2004Participant List  
Working Group15th—17th February 2005Participant List  
Meeting26th—30th September 2005Participant List  
Working Group31st July—2nd August 2006Participant List  
Working Group11th—15th December 2006Participant List  
Working Group6th—7th March 2007Participant List  
Working Group4th—6th April 2007Participant List  

Abstract
The goals of the Science Environment for Ecological Knowledge (SEEK) are to make fundamental improvements in how researchers can 1) gain global access to ecological data and information, 2) rapidly locate and utilize distributed computational services, and 3) exercise powerful new methods for capturing, reproducing, and extending the analysis process itself. The project involves a multidisciplinary team of computer scientists, ecologists and technologists from the Partnership for Biodiversity Informatics (PBI), a consortium comprising the National Center for Ecological Analysis and Synthesis (NCEAS); the San Diego Supercomputer Center (SDSC); the University of Kansas (KU); and the University of New Mexico (UNM) and partnering institutions (Arizona State University, University of North Carolina, University of Vermont, and Napier University in Scotland).

TypeProducts of NCEAS Research
Journal Article Altintas, Ilkay; Bhagwanani, S.; Butler, D.; Chandra, S.; Cheng, Z.; Coleman, M.; Critchlow, T.; Gupta, A.; Han, W.; Liu, L.; Ludaescher, Bertram; Pu, C.; Moore, Reagan; Shoshani, A.; Vouk, M. 2003. A modeling and execution environment for distributed scientific workflows. Proceedings of the 15th IEEE International Conference on Scientific and Statistical Database Management (SSDBM). Boston, Massachusetts. Pages 1-4.
Journal Article Altintas, Ilkay; Jaeger-Frank, Efrat; Lin, Kuo-chuan; Ludaescher, Bertram; Memon, A. 2004. A web service composition and deployment framework for scientific workflows [abstract]. 2nd IEEE International Conference on Web Services (ICWS). San Diego, California. Pages 814-815.
Journal Article Altintas, Ilkay; Berkley, Chad; Jaeger-Frank, Efrat; Jones, Matthew B.; Ludaescher, Bertram; Mock, S. 2004. Kepler: An extensible system for design and execution of scientific workflows. Proceedings of the 16th IEEE International Conference on Scientific and Statistical Database Management (SSDBM). IEEE Computer Society. Washington D.C.. Pages 423.
Journal Article Altintas, Ilkay; Berkley, Chad; Jaeger-Frank, Efrat; Jones, Matthew B.; Ludaescher, Bertram; Mock, S. 2004. Kepler: Towards a grid enabled system for scientific workflows. Workshop on Workflow in Grid Systems, GlobalGrid Forum (GGF10). Berlin, Germany.
Book Chapter Altintas, Ilkay; Birnbaum, A.; Baldridge, K.; Sudholt, W.; Miller, Mark; Amoreira, C.; Potier, Y.; Ludaescher, Bertram. 2005. A framework for the design and reuse of grid workflows. Scientific Applications on Grid Computing (SAG'04). Vol: 3458. Springer Berlin / Heidelberg. Springer. Pages 120-123.
Journal Article Anderson, Robert P.; Lew, D.; Peterson, A. Townsend. 2003. Evaluating predictive models of species' distributions: Criteria for selecting optimal models. Ecological Modelling. Vol: 162. Pages 211-232.
Journal Article Athanasiadis, I. N.; Villa, Ferdinando; Rizzoli, Andrea M. 2007. Enabling knowledge-based software engineering through semantic object-relational mappings. 4th European Semantic Web Conference.
Journal Article Athanasiadis, I. N.; Villa, Ferdinando; Rizzoli, Andrea 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.
Journal Article Balmin, A.; Papakonstantinou, Y.; Vianu, Victor. 2004. Incremental validation of xml documents. ACM Transactions on Database Systems (TODS) (Special Issue). Vol: 29(4). Pages 710-751.
Journal Article Barseghian, Derik; Altintas, Ilkay; Jones, Matthew B. 2008. Accessing and using sensor data within the Kepler scientific workflow system. Edited by Gries C., Jones M.B. Proceedings of Environmental Information Management Conference 2008. Pages 26-32.
Journal Article Berkley, Chad; Bowers, Shawn; Jones, Matthew B.; Ludaescher, Bertram; Schildhauer, Mark P.; Tao, Jing. 2005. Incorporating semantics in scientific workflow authoring. Proceedings of the 17th IEEE International Conference on Scientific and Statistical Database Management (SSDBM).
Journal Article Berkley, Chad; Bowers, Shawn; Jones, Matthew B.; Madin, Joshua S.; Schildhauer, Mark P. 2009. Improving data discovery in metadata repositories through semantic search. Proceedings of iSEEK'2009, IEEE Computer Society. Pages 1152-1159.
Journal Article Boucelma, O.; Castano, S.; Goble, C. A.; Josifovski, V.; Lacroix, Z.; Ludaescher, Bertram. 2002. Report on the EDBT'2002 panel on scientific data integration. SIGMOD Record. Vol: 31(4). Pages 107.
Journal Article Bowers, Shawn; Ludaescher, Bertram. 2003. Towards a generic framework for semantic registration of scientific data. Proceedings of the Workshop on Semantic Web Technologies for Searching and Retrieving Scientific Data, CEUR Workshop Proceedings. Vol: 83.
Journal Article Bowers, Shawn; Ludaescher, Bertram. 2004. An ontology-driven framework for data transformation in scientific workflows. Proceedings of the International Workshop on Data Integration in the Life Sciences. Vol: 2994.
Journal Article Bowers, Shawn; Delcambre, L. 2004. Incremental navigation: Providing simple and generic access to heterogeneous structures. Proceedings of the 23rd International Conference on Conceptual Modeling (ER), LNCS. Vol: 3288. Pages 668-681.
Journal Article Bowers, Shawn; Lin, Kuo-chuan; Ludaescher, Bertram. 2004. On integrating scientific resources through semantic registration. Proceedings of the 16th IEEE International Conference on Scientific and Statistical Database Management (SSDBM).
Journal Article Bowers, Shawn; Ludaescher, Bertram. 2005. Actor-oriented design of scientific workflows. Proceedings of the International Conference on Conceptual Modeling (ER), LNCS. Vol: 3716. Pages 369-384.
Journal Article Bowers, Shawn; Thau, Dave; Williams, Richard J.; Ludaescher, Bertram. 2005. Data procurement for enabling scientific workflows: On exploring inter-ant parasitism. Science Environment for Ecological Knowledge. Pages 57-63.
Journal Article Bowers, Shawn; Ludaescher, Bertram. 2005. Towards automatic generation of semantic types in scientific workflows. Proceedings of the International Workshop on Scalable Semantic Web Knowledge Base Systems (SSWS), WISE Workshop. Vol: 3807. Pages 207-216.
Journal Article Bowers, Shawn; Ludaescher, Bertram. 2006. A calculus for propagating semantic annotations through scientific workflow queries. Query Languages and Query Processing (QLQP06), EDBT Post-Conference Workshop. Vol: 4254. Munich, Germany. Pages 712-723.
Presentations Bowers, Shawn; McPhillips, Timothy; Ludaescher, Bertram; Cohen, S.; Davidson, Susan. 2006. A model for user-oriented data provenance in pipelined scientific workflows. Provenance And Annotation Of Data, International Provenance and Annotation Workshop (IPAW'06). Vol: 4145. Chicago, Illinois. Pages 133-147.
Presentations Bowers, Shawn; Ludaescher, Bertram; Ngu, A. H.; Critchlow, T. 2006. Enabling scientific workflow reuse through structured composition of dataflow and control-flow. Post-ICDE IEEE Workshop on Workflow and Data Flow for Scientific Applications (SciFlow'06). Atlanta, GA.
Journal Article Bowers, Shawn; Delcambre, L. 2006. Using the uni-level description (uld) to support data-model interoperability. Data & Knowledge Engineering. Vol: 59(3). Pages 511-533.
Journal Article Bowers, Shawn; McPhillips, Timothy; Wu, M.; Ludaescher, Bertram. 2007. Project histories: Managing data provenance across collection-oriented scientific workflow runs. Proceedings of the International Workshop on Data Integration in the Life Sciences. Vol: 4544. Pages 122-138.
Journal Article Bowers, Shawn; Madin, Joshua S.; Schildhauer, Mark P. 2008. A conceptual modeling framework for expressing observational data semantics. Proceedings of the International Conference on Conceptual Modeling (ER), LNCS. Vol: 5231. Pages 41-55.
Journal Article Bowers, Shawn; McPhillips, Timothy; Riddle, Sean; Anand, M.; Ludaescher, Bertram. 2008. Kepler/ppod: Scientific workflow and provenance support for assembling the tree of life. Proceedings of the International Provenance and Annotation Workshop, LNCS. Vol: 5272. Pages 70-78.
Journal Article Bowers, Shawn; McPhillips, Timothy; Ludaescher, Bertram. 2008. Provenance in collection-oriented workflows. Concurrency and Computation-Practice & Experience. Vol: 20(5). Pages 519-529.
Journal Article Brambilla, M.; Deutsch, A.; Sui, L.; Vianu, Victor. 2005. The role of visual tools in a web application design and verification framework: A visual notation for LTL formulae. 5th International Conference on Web Engineering (ICWE). Pages 557-568.
Journal Article Butler, Randy; Servilla, Mark; Gage, Stuart; Basney, Jim; Welch, Von; Baker, William F.; Fleury, Terry; Duda, Patrick; Gehrig, David; Bletzinger, Michael; Tao, Jing; Freemon, D. Michael. 2007. CyberInfrastructure for the analysis of ecological acoustic sensor data: A use case study in grid deployment. Cluster Computing-The Journal of Networks Software Tools and Applications. Vol: 10(3). Springer Netherlands.
Journal Article Cox, Stephen B.; Clark, Christopher M.; Cleland, Elsa E.; Suding, Katharine N.; Weiher, Evan; Pennington, Deana D. 2008. Scale-dependent responses of plant biodiversity to nitrogen enrichment. Ecology. Vol: 89(8). Pages 2165-2171.
Journal Article Craig, Paul; Kennedy, Jessie. 2008. Concept relationship editor: A visual interface to support the assertion of synonymy relationships between taxonomic classifications. Proceedings of SPIE, Visualization and Data Analysis 2008. Vol: 6809. San Jose, CA. Pages 680906-680906-12.
Journal Article Cushing, Judith B.; Vanderbilt, Kristin; Brunt, James W.; Jones, Matthew B.; Gupta, A.; McCartney, Peter. 2005. NSF long term ecological research sites praxis et theoria - LTER information management and CS research. Edited by Frew, J.. Proceedings of the 17th IEEE International Conference on Scientific and Statistical Database Management (SSDBM). Pages 303-306.
Journal Article Davidson, Susan; Boulakia, S.; Eyal, A.; Ludaescher, Bertram; McPhillips, Timothy; Bowers, Shawn; Anand, M.; Freire, Juliana. 2007. Provenance in scientific workflow systems. IEEE Data Engineering Bulletin. Vol: 30(4). Pages 44-50.
Journal Article Day, Troy; Stockwell, David. In Press. A dynamic surrogate model of global landslide distribution. Earth Surface Processes and Landforms.
Journal Article Deutsch, A.; Sui, L.; Vianu, Victor. 2004. Specification and verification of data-driven web services. Proceedings of the 23rd ACM SIGACT-SIGMOD-SIGART Symposium on Principles of Database Systems (PODS). Pages 71-82.
Journal Article Deutsch, A.; Marcus, M.; Sui, L.; Vianu, Victor; Zhou, D. 2005. A verifier for interactive, data-driven web applications. Proceedings of the ACM SIGMOD International Conference on Management of Data. Vol: 2005. Pages 539-550.
Journal Article Deutsch, A.; Ludaescher, Bertram; Nash, A. 2005. Rewriting queries using views with access patterns under integrity constraints. Edited by T. Eiter and L. Libkin International Conference on Database Theory (ICDT). Edinburgh, Scotland. Pages 352-367.
Journal Article Deutsch, A.; Sui, L.; Vianu, Victor; Zhou, D. 2006. Verification of communicating, data-driven web services. Proceedings of the 25th ACM SIGACT-SIGMOD-SIGART Symposium on Principles of Database Systems (PODS). Pages 90-99.
Journal Article Deutsch, A.; Ludaescher, Bertram; Nash, A. 2007. Rewriting queries using views with access patterns under integrity constraints. Theoretical Computer Science. Vol: 371(3). Pages 200-226.
Journal Article Downey, Laura. 2005. Making technology work for scientists. LTER Network News. Vol: 18(1).
Journal Article Downey, Laura. 2006. Designing annotation mechanisms with users in mind: A paper prototyping case study from the scientific environment for ecological knowledge (SEEK). Proceedings of the Workshop on Semantic Web User Interaction, International Semantic Web Conference. Pages 1-12.
Journal Article Downey, Laura. 2007. Group usability testing: Evolution in usability techniques. Journal of Usability Studies. Vol: 2(3). Pages 133-144.
Journal Article Downey, Laura; Pennington, Deana D. 2009. Bridging the gap between technology and science with examples from ecology and biodiversity. Biodiversity Informatics. Vol: 6. Pages 18-27.
Journal Article Dunne, Jennifer A.; Williams, Richard J.; Martinez, Neo. 2004. Network structure and robustness of marine food webs. Marine Ecology-Progress Series. Vol: 2(3). Pages 311-312.
Journal Article Franz, Nico M. 2005. On the lack of good scientific reasons for the growing phylogeny/classification gap. Cladistics. Vol: 21. Pages 495-500.
Journal Article Franz, Nico M.; Peet, Robert K.; Weakley, Alan. 2007. On the use of taxonomic concepts in support of biodiversity research and taxonomy. Edited by Wheeler, Q. D. New Taxonomy. Vol: 74. Taylor & Francis. Boca Raton, FL. Pages 63-84.
Journal Article Franz, Nico M.; Peet, Robert K. 2009. Towards a language for mapping relationships among taxonomic concepts. Systematics and Biodiversity. Vol: 7(1). Pages 5–20.
Journal Article Gauch, Susan. 2002. Biodiversity information organization using taxonomy (BIOT). Proceedings of the National Conference on Digital Government Research. Pages 169-174.
Journal Article Gauch, Susan; Chaffee, J.; Pretschner, A. 2003. Ontology-based user profiles for search and browsing. Web Intelligence and Agent Systems. Vol: 1(3-4). Pages 219-234.
Journal Article Gauch, Susan; Trajkova, Joana. 2004. Improving ontology-based user profiles. Proceedings of RIAO 2004. France. Pages 380-389.
Journal Article Gauch, Susan; Ranganathan, S.; Chandramouli, A. 2009. Training a hierarchical classifier using inter document relationships. ACM Transactions on Information Systems. Vol: 60(1). Pages 47-58.
Journal Article Gauch, Susan; Chandramouli, A. In Press. Semi-automatic update of existing taxonomy using text mining. 5th International Conference on Ecological Informatics (ISEI5).
Journal Article Goguen, Joseph. 2004. Data, schema and ontology integration. Edited by Lisbon Proceedings of CombLog Workshop 2004. Vol: 2830. (Online version)
Journal Article Goguen, Joseph. 2004. Ontology, society, and ontotheology. Edited by Achille Varzi; Laure Vieu Formal Ontology in Information Systems. IOS Press. Pages 95-103.
Journal Article Goguen, Joseph. 2004. Three perspectives on information integration. Proceedings of Seminar 04391, Semantic Interoperability and Integration. Schloss Dagstuhl, Germany.
Journal Article Goguen, Joseph. 2005. Data, schema, ontology, and logic integration. Logic Journal of the IGPL. Vol: 13(6). Pages 685-715.
Journal Article Goguen, Joseph. 2005. What is a concept?. Edited by Frithjof Dau; MarieLaure Mungier Proceedings of the 13th International Conference on Conceptual Structures (ICCS). Vol: 3596. Pages 52-77.
Book Chapter Goguen, Joseph. In Press. Data, schema, ontology, and logic integration. Edited by Carnielli, W.; Dionisio, M.; Mateus, P.. Combining Logics.
Journal Article Goguen, Joseph. In Press. Information integration in institutions. Edited by Moss, Larry. Jon Barwise Memorial Volume. Indiana University Press.
Journal Article Graham, Martin; Kennedy, Jessie. 2005. Extending taxonomic visualisation to incorporate synonymy and structural markers. Information Visualization. Vol: 4(3). Pages 206-223.
Journal Article Graham, Martin; Kennedy, Jessie; Downey, Laura. 2006. Visual comparison and exploration of natural history collections. Edited by A. Celentano & P. Mussio Advanced Visual Interfaces (AVI) 2006. ACM Press. Venice, Italy. Pages 310-313.
Journal Article Graham, Martin; Kennedy, Jessie. 2007. Exploring multiple trees through DAG representations. IEEE Transactions on Visualization and Computer Graphics. Vol: 13(6). Pages 1294-1301.
Journal Article Graham, Martin; Kennedy, Jessie. 2007. Visual exploration of alternative taxonomies through concepts. Ecological Informatics. Vol: 2 (3). Pages 248-261.
Journal Article Graham, Martin; Craig, Paul; Kennedy, Jessie. 2008. Visualisation to aid biodiversity studies through accurate taxonomic reconciliation. Edited by Gray, A., Jeffery, K., Shao, J. Proceedings of BNCOD 2008 LNCS 5071. Springer-Verlag. Cardiff, UK. Pages 280-291.
Journal Article Iguchi, K.; Matsuura, K.; McNyset, Kristina M.; Peterson, A. Townsend; Pereira, Ricardo S.; Powers, Catherine M.; Vieglais, David A.; Wiley, O.; Yodo, T. 2004. Predicting invasions of North American basses in Japan using native range data and a genetic algorithm. Transactions of the American Fisheries Society. Vol: 133. Pages 845-854.
Journal Article Illoldi, P.; Sanchez-Cordero, V.; Peterson, A. Townsend. 2004. Predicting distributions of Mexican mammals using ecological niche modeling. Journal of Mammalogy. Vol: 85(4). Pages 658-662.
Journal Article Jaeger-Frank, Efrat; Altintas, Ilkay; Zhang, Jianting; Ludaescher, Bertram; Pennington, Deana D.; Michener, William K. 2005. A scientific workflow approach to distributed geospatial data processing using web services. Proceedings of the 17th IEEE International Conference on Scientific and Statistical Database Management (SSDBM). University of California, Santa Barbara. Pages 87-90.
Journal Article Jones, Christopher; Blanchette, Carol A.; Brooke, Matthew; Harris, John; Jones, Matthew B.; Schildhauer, Mark P. 2007. A metadata-driven framework for generating field data entry interfaces in ecology. Ecological Informatics. Vol: 2(3). Pages 270-278.
Journal Article Jones, Matthew B.; Berkley, Chad; Bojilova, Jivka; Schildhauer, Mark P. 2001. Managing scientific metadata. IEEE Internet Computing. Vol: 5(5). Pages 59-68. (Abstract)
Journal Article Jones, Matthew B.; Schildhauer, Mark P.; Reichman, O. J.; Bowers, Shawn. 2006. The new bioinformatics: Integrating ecological data from the gene to the biosphere. Annual Review of Ecology Evolution and Systematics. Vol: 37. Pages 519-544.
Journal Article Jones, Matthew B. 2007. Meta-information systems and ontologies: A special feature from ISEI'06. Ecological Informatics. Vol: 2 (3). Pages 193-194.
Journal Article Kennedy, Jessie; Kukla, Robert; Paterson, T. 2005. Scientific names are ambiguous as identifiers for biological taxa: their context and definition are required for accurate data integration. Proceedings of the International Workshop on Data Integration in the Life Sciences. Vol: 3615. San Diego. Pages 80-95.
Journal Article Kennedy, Jessie; Hyam, R.; Kukla, Robert; Paterson, T. 2006. A standard data model representation for taxonomic information. OMICS-A Journal of Integrative Biology. Pages 102, 220-230.
Journal Article Krivov, Serguei; Villa, Ferdinando. 2005. Towards an ontology-based visual query system. Edited by Ludascher, B.; Raschid, L.. Data Integration in the Life Sciences. Vol: 3615. Pages 313-316.
Book Chapter Krivov, Serguei; Villa, Ferdinando. 2005. Towards the paradigm of an ontology-based user interface: From simple knowledge maps to graphical query languages. Edited by Ludascher, B.; Rashid, L.. 2nd International Workshop on Data Integration in the Life Sciences, University of California, San Diego. Pages 313-315.
Book Chapter Krivov, Serguei; Villa, Ferdinando; Williams, Roberton; Wu, X. 2006. On visualization of OWL ontologies. Edited by Baker, C.J.O.; Cheung, K.H.. Semantic Web: Revolutionizing Knowledge Discovery in the Life Sciences. Springer. New York.
Journal Article Krivov, Serguei; Williams, Richard J.; Villa, Ferdinando. 2007. GrOWL: A tool for visualization and editing of OWL ontologies. Journal of Web Semantics. Pages 54-57.
Journal Article Krivov, Serguei; Villa, Ferdinando. Action ontologies, natural actions and interactions. Journal of Logic and Computation. (Online version)
Journal Article Leinfelder, Ben; Tao, Jing; Costa, Duane; Jones, Matthew B.; Servilla, Mark; O'Brien, Mike; Burt, Chad. 2008. Using metadata for loading and querying heterogeneous scientific data. Edited by Gries C.; Jones M.B.. Proceedings of Environmental Information Management Conference 2008. Pages 90-95.
Journal Article Leinfelder, Ben; Tao, Jing; Costa, Duane; Jones, Matthew B.; Servilla, Mark; O'Brien, Margaret; Burt, Chad. 2010. A metadata-driven approach to loading and querying heterogeneous scientific data. Ecological Informatics. Vol: 5(1). Pages 3-8. (Online version)
Journal Article Levine, R. S.; Benedict, M. Q.; Peterson, A. Townsend. 2004. Distribution of members of Anopheles quadrimaculatus Say s.l. (Diptera: Culicidae) and implications for their roles in malaria transmission in the United States. Journal of Medical Entomology. Vol: 41. Pages 607-613.
Journal Article Levine, R. S.; Peterson, A. Townsend; Benedict, M. Q. 2004. Geographic and ecologic distributions of the anopheles gambiae complex predicted using a genetic algorithm. American Journal of Tropical Medicine and Hygiene. Vol: 70. Pages 105-109.
Journal Article Lin, Kai; Ludaescher, Bertram. 2003. A system for semantic integration of geologic maps via ontologies [abstract]. Semantic Web Technologies for Searching and Retrieving Scientific Data (SCISW). Sanibel Island, Florida.
Journal Article Linke, S.; Norris, Richard; Faith, Dan; Stockwell, David. 2005. ANNA: A new prediction method for bioassessment programs. Freshwater Biology. Vol: 50. Pages 1, 147.
Book Chapter Ludaescher, Bertram; Gupta, A.; Martone, M. E. 2003. A model-based mediator system for scientific data management. Edited by Lacroix, Z.; Critchlow, T.. Bioinformatics: Managing Scientific Data (Morgan Kaufmann).
Journal Article Ludaescher, Bertram; Altintas, Ilkay; Gupta, A. 2003. Compiling abstract scientific workflows into web service workflows. Proceedings of the 15th IEEE International Conference on Scientific and Statistical Database Management (SSDBM). Boston, Massachussets.
Journal Article Ludaescher, Bertram; Nash, A. 2004. Web service composition through declarative queries: The case of conjunctive queries with union and negation [abstract]. 20th International Conference on Data Engineering (ICDE).
Journal Article Ludaescher, Bertram; Lin, Kai; Bowers, Shawn; Jaeger-Frank, Efrat; Brodaric, B.; Baru, Chaitan. 2006. Managing scientific data: from data integration to scientific workflows. GSA Today (Special Issue on Geoinformatics).
Journal Article Ludaescher, Bertram; Altintas, Ilkay; Berkley, Chad; Higgins, Dan; Jaeger-Frank, Efrat; Jones, Matthew B.; Lee, Edward A.; Tao, Jing; Zhao, Yang. 2006. Scientific workflow management and the kepler system. Concurrency and Computation-Practice & Experience. Vol: 18. Pages 1039-1065.
Journal Article Ludaescher, Bertram; Bowers, Shawn; McPhillips, Timothy; Podhorszki, N. 2006. Scientific workflows: More e-science mileage from cyberinfrastructure. Proceedings of the IEEE International Conference on e-Science Workshop on Scientific Workflows and Business Workflow Standards in e-Science. Pages 145.
Journal Article Ludaescher, Bertram. 2006. Scientific workflows: Towards a new synthesis for information integration. Proceedings of the Workshop on Information Integration.
Journal Article Ludaescher, Bertram; Podhorszki, N.; Altintas, Ilkay; Bowers, Shawn; McPhillips, Timothy. 2008. From computation models to models of provenance: The RWS approach. Concurrency and Computation-Practice & Experience. Vol: 20(5). Pages 507-518.
Book Chapter Ludaescher, Bertram; Bowers, Shawn; McPhillips, Timothy. 2009. Scientific workflows. Edited by Tamer Oszu, M.; Liu, L. Encyclopedia of Database Systems. Springer-Verlag. Pages 2507-2511.
Journal Article Madin, Joshua S.; Bowers, Shawn; Schildhauer, Mark P.; Krivov, Serguei; Pennington, Deana D.; Villa, Ferdinando. 2007. An ontology for describing and synthesizing ecological observation data. Ecological Economics . Vol: 2. Pages 279-296.
Journal Article Madin, Joshua S.; Bowers, Shawn; Schildhauer, Mark P.; Jones, Matthew B. 2008. Advancing ecological research with ontologies. Trends in Ecology & Evolution. Vol: 23(3).
Journal Article Marciano, Richard; Chien-Yi, Hou; Burnstan, Lynn; Kreisler, Harry; Moore, Reagan; Rajasekar, Arcot. 2006. Long-term preservation of large-scale multimedia collections: A digital workflow approach. Archiving 2006. Ottawa, Canada.
Journal Article Martínez-Meyer, Enrique; Peterson, A. Townsend; Hargrove, William W. 2004. Ecological niches as stable distributional constraints on mammal species, with implications for Pleistocene extinctions and climate change projections for biodiversity. Global Ecology and Biogeography. Vol: 13. Pages 305-314.
Journal Article Martínez-Meyer, Enrique; Peterson, A. Townsend; Navarro-Sigenza, A. G. 2004. Evolution of seasonal ecological niches in the Passerina buntings (aves: cardinalidae). Proceedings of the Royal Society B-Biological Sciences. Vol: 271. Pages 1151-1157.
Journal Article McPhillips, Timothy; Bowers, Shawn. 2005. An approach for pipelining nested collections in scientific workflows. SIGMOD Record. Vol: 34(3). Pages 12-17.
Journal Article McPhillips, Timothy; Bowers, Shawn; Ludaescher, Bertram. 2006. Collection-oriented scientific workflows for integrating and analyzing biological data. 3rd International Workshop on Data Integration in the Life Sciences (DILS), European Bioinformatics Institute (EBI). Hinxton, UK.
Journal Article McPhillips, Timothy; Bowers, Shawn; Zinn, Daniel; Ludaescher, Bertram. 2008. Scientific workflow design for mere mortals. Future Generation Computer Systems. Vol: 25. Pages 541-551.
Journal Article Michener, William K.; Beach, James H.; Bowers, Shawn; Downey, Laura; Jones, Matthew B.; Ludaescher, Bertram; Pennington, Deana D.; Rajasekar, Arcot; Romanello, Samantha J.; Schildhauer, Mark P.; Vieglais, David A.; Zhang, Jianting. 2005. Data integration and workflow solutions for ecology. Data Integration in the Life Sciences. Vol: 3615. Pages 321-324.
Journal Article Michener, William K.; Beach, James H.; Bowers, Shawn; Downey, Laura; Jones, Matthew B.; Ludaescher, Bertram; Pennington, Deana D.; Rajasekar, Arcot; Romanello, Samantha J.; Schildhauer, Mark P.; Vieglais, David A.; Zhang, Jianting. 2005. SEEK: Data integration and workflow solutions for ecology. Proceedings of the Workshop on Data Integration in the Life Sciences (DILS), LNCS. Vol: 3615. Pages 321-324.
Journal Article Michener, William K. 2006. Meta-information concepts for ecological data management. Informatics. Vol: 1. Pages 3-7.
Journal Article Mitchener, William K.; Beach, James H.; Jones, Matthew B.; Ludaescher, Bertram; Pennington, Deana D.; Pereira, Ricardo S.; Rajasekar, Arcot; Schildhauer, Mark P. 2007. A knowledge environment for the biodiversity and ecological sciences. Journal of Intelligent Information Systems. Vol: 29. Pages 111-126.
Journal Article Moore, Reagan; Chen, Sheau-Yen; Schroeder, Wayne; Rajasekar, Arcot; Wan, Michael; Jagatheesan, Arun. 2006. Storage resource broker global data grids. 23rd IEEE Conference on Mass Storage Systems and Technologies. College Park, Maryland.
Journal Article Nakazawa, Yoshinori; Peterson, A. Townsend; Martínez-Meyer, Enrique; Navarro-Sigenza, A. G. 2004. Seasonal niches of nearctic-neotropical migratory birds: Implications for the evolution of migration. Auk. Vol: 121. Pages 610-618.
Journal Article Nam, Young-Kwang; Goguen, Joseph; Wang, Guilian. 2002. A metadata integration assistant generator for heterogeneous distributed databases. Proceedings of the 16th Conference on Ontologies, Databases, and Applications of Semantics for Large Scale Information Systems. Vol: 2519. Pages 1331.
Journal Article Nam, Young-Kwang; Goguen, Joseph; Wang, Guilian. 2003. A metadata tool for retrievalfrom heterogeneous distributed XML documents. Lecture Notes in Computer Science. Vol: 2660. Pages 716.
Journal Article Nash, A.; Ludaescher, Bertram. 2004. Processing first-order queries with limited access patterns. ACM Symposium on Principles of Database Systems (PODS). Paris, France.
Journal Article Nash, A.; Ludaescher, Bertram. 2004. Processing unions of conjunctive queries with negation under limited access patterns. International Conference on Extending Database Technology (EDBT).
Journal Article Ngu, A. H.; Bowers, Shawn; McPhillips, Timothy; Critchlow, T.; Haasch, N. 2008. Flexible scientific workflow modeling using frames, templates, and dynamic embedding. Proceedings of the International Conference on Statistical and Scientific Databases (SSDBM). Pages 566-572.
Journal Article Oberhauser, Karen S.; Peterson, A. Townsend. 2004. Modeling current and future potential wintering distributions of eastern North American monarch butterflies. Proceedings of the National Academy of Sciences. Vol: 100. Pages 14063-14068.
Journal Article Ortega-Huerta, Miguel A.; Peterson, A. Townsend. 2003. Geographic scale effects on ecological distributions of Mexican birds. Serie Zoologia. Vol: 74(2). Anales del Instituto de Biologia, U.N.A.M.. Pages 203-210.
Journal Article Papes, M.; Peterson, A. Townsend. 2003. Predicting the potential invasive distribution for Eupatorium adenophorum Spreng. in China. Journal of Wuhan Botanical Research. Vol: 21. Pages 137-142.
Journal Article Pennington, Deana D. 2005. Cyberinfrastructure for grassland biodiversity studies. LTER Network News.
Journal Article Pennington, Deana D.; Michener, William K. 2005. The EcoGrid and the Kepler workflow system: a new platform for conducting ecological analyses. Bulletin of the Ecological Society of America (Emerging Technologies). Vol: 86(3). Pages 169-176.
Journal Article Pennington, Deana D. 2006. Representing the dimensions of an ecological niche. 5th International Semantic Web Conference (ISWC) Workshop. Athens, Georgia.
Journal Article Pennington, Deana D.; Madin, Joshua S.; Villa, Ferdinando; Athanasiadis, I. N. 2007. Computer-supported collaborative knowledge modeling in ecology. Edited by Noy, N.; Alani,H.; Stumme, G.; Mika,P.; Sure, Y.; Vrandecic, D.. Proceedings of the Workshop on Social and Collaborative Construction of Structured Knowledge, 16th International World Wide Web Conference (WWW). Banff, Canada.
Book Chapter Pennington, Deana D.; Higgins, Dan; Peterson, A. Townsend; Jones, Matthew B.; Ludaescher, Bertram; Bowers, Shawn. 2007. Ecological niche modeling using the kepler workflow system. Workflows for eScience: Scientific Workflows for Grids. Springer.
Journal Article Pennington, Deana D. 2007. Exploratory modeling of forest disturbance scenarios in central Oregon using computational experiments in GIS. Ecological Informatics. Vol: 2(4). Pages 387-403.
Journal Article Pennington, Deana D. 2007. Supporting large-scale science with workflows. Proceedings of the 2nd Workshop on Workflows in Support of Large-Scale Science. Monterey Bay, California.
Journal Article Pennington, Deana D. 2008. Cross-disciplinary collaboration and learning. Ecology and Society. Vol: 13(2). Pages 8.
Journal Article Pennington, Deana D.; Athanasiadis, I. N.; Bowers, Shawn; Krivov, Serguei; Madin, Joshua S.; Schildhauer, Mark P.; Villa, Ferdinando. 2008. Indirectly driven knowledge modeling in ecology. International Journal of Metadata, Semantics and Ontologies. Vol: 3(3). Pages 210-225.
Journal Article Pennington, Deana D.; Michener, William K.; Katz, Samantha; Downey, Laura; Schildhauer, Mark P. 2008. Transforming scientists through technical education - a view from the trenches. Computing in Science & Engineering. Vol: 10(5). Pages 28-33.
Journal Article Pennington, Deana D. Collaborative research teams as dynamic distributed cognitive systems. Computer Supported Cooperative Work.
Journal Article Peterson, A. Townsend; Vieglais, David A.; Navarro-Sigenza, A. G.; Silva, M. 2003. A global distributed biodiversity information network: Building the world museum. Bulletin of the British Ornithologists' Club. Vol: 123A. Pages 186-196.
Journal Article Peterson, A. Townsend; Pereira, Ricardo S.; Kluza, D. A. 2003. Assessment of invasive potential of Homalodisca coagulata in western North America and South America. Biota Neotropica. (Online version)
Journal Article Peterson, A. Townsend; Shaw, J. J. 2003. Lutzomyia vectors for cutaneous leishmaniasis in southern Brazil: Ecological niche models, predicted geographic distributions, and climate change effects. International Journal of Parasitology. Vol: 33. Pages 919-931.
Journal Article Peterson, A. Townsend; Vieglais, David A.; Andreasen, J. 2003. Migratory birds modeled as critical transport agents for west nile virus in North America. Vector-Borne and Zoonotic Diseases. Vol: 3(1). Pages 27-37.
Journal Article Peterson, A. Townsend; Kluza, D. A. 2003. New distributional modeling approaches for gap analysis. Animal Conservation. Vol: 6. The Zoological Society of London. Pages 47-54.
Journal Article Peterson, A. Townsend; Holt, Robert D. 2003. Niche differentiation in Mexican birds: Using point occurrences to detect ecological innovation. Ecology Letters. Vol: 6(8). Pages 774-782.
Journal Article Peterson, A. Townsend. 2003. Predicting the geography of species' invasions via ecological niche modeling. Quarterly Review of Biology. Vol: 78(4). The University of Chicago Press. Pages 419-433.
Journal Article Peterson, A. Townsend; Papes, M.; Kluza, D. A. 2003. Predicting the potential invasive distributions of four alien plant species in North America. Weed Science. Vol: 51. Pages 863-868.
Journal Article Peterson, A. Townsend. 2003. Projected climate change effects on Rocky Mountain and Great Plains birds: Generalities of biodiversity consequences. Global Change Biology. Vol: 9. Pages 647-655.
Journal Article Peterson, A. Townsend; Robins, C. R. 2003. Using ecological-niche modeling to predict barred owl invasions with implications for spotted owl conservation. Conservation Biology. Vol: 17. Pages 1161-1165.
Book Chapter Peterson, A. Townsend. 2004. Climate change effects on species and biodiversity. Edited by Ragaini, R.. International Seminar on Nuclear War and Planetary Emergencies, 30th Session. World Scientific, New Jersey. Pages 59-68.
Journal Article Peterson, A. Townsend; Navarro-Sigenza, A. G.; Pereira, Ricardo S. 2004. Detecting errors in biodiversity data based on collectors' itineraries. Bulletin of the British Ornithologists' Club. Vol: 124(2). Pages 143-151.
Journal Article Peterson, A. Townsend; Bauer, John T.; Mills, James N. 2004. Ecological and geographic distribution of filovirus disease. Emerging Infectious Diseases. Vol: 10(1). Pages 40-47.
Journal Article Peterson, A. Townsend; Martínez-Meyer, Enrique; Gonzalez-Salazar, C.; Hall, Peter W. 2004. Modeled climate change effects on distributions of Canadian butterfly species. Canadian Journal of Zoology-Revue Canadienne de Zoologie. Vol: 82. Pages 851-858.
Journal Article Peterson, A. Townsend; Pereira, Ricardo S.; Hargrove, William W. 2004. Potential geographic distribution of Anoplophora glabripennis (Coleoptera: Cerambycidae) in North America. American Midland Naturalist. Vol: 151. Pages 170-178.
Journal Article Peterson, A. Townsend; Pereira, Ricardo S.; de Camargo Neves, Vera Lucia Fonseca. 2004. Using epidemiological survey data to infer geographic distributions of leishmania vector species. Revista da Sociedade Brasileira de Medicina Tropical. Vol: 37. Pages 10-14.
Journal Article Peterson, A. Townsend; Komar, Nicholas; Komar, Oliver; Navarro-Sigenza, A. G.; Robbins, Mark B.; Martínez-Meyer, Enrique. 2004. West nile virus in the new world: Potential impacts on bird species. Bird Conservation International. Vol: 14. Pages 215-232.
Journal Article Peterson, A. Townsend. 2005. Kansas gap analysis: The importance of validating distributional models before using them. Southwestern Naturalist. Vol: 50(2). Southwestern Association of Naturalists. Pages 230-236.
Book Chapter Peterson, A. Townsend; Tian, H.; Martínez-Meyer, Enrique; Huntley, Brian; Soberon Mainero, Jorge; Sanchez-Cordero, V. 2005. Modeling distributional shifts of individual species and biomes. Biodiversity and Climate Change. Yale University. New Haven, CT.
Journal Article Podhorszki, N.; Ludaescher, Bertram; Klasky, Scott A. 2007. Workflow automation for processing plasma fusion simulation data. Proceedings of the 2nd Workshop on Workflows in Support of Large-Scale Science. ACM. New York. Pages 35-44.
Journal Article Rajasekar, Arcot; Wan, Michael; Moore, Reagan; Kremenek, George; Guptil, Tom. 2003. Data grids, collections and grid bricks. Proceedings of the 20th IEEE/11th NASA Goddard Conference on Mass Storage Systems and Technologies (MSS). Pages 2.
Journal Article Rajasekar, Arcot; Wan, Michael; Moore, Reagan; Schroeder, Wayne; Kremenek, George; Jagatheesan, Arun; Cowart, C.; Zhu, Bing; Chen, Sheau-Yen; Olschanowsky, Roman. 2003. Storage resource broker managing distributed data in a grid. Computer Society of India Journal. Vol: 33(4). Pages 42-54.
Journal Article Rajasekar, Arcot; Wan, Michael; Moore, Reagan; Schroeder, Wayne. 2004. Data grid federation. Proceedings of the 11th International Conference on Parallel (Special Session on New Trends in Distributed Data Access).
Journal Article Rajasekar, Arcot; Lu, Sifang; Moore, Reagan; Vernon, Frank; Orcutt, John; Lindquist, Kent. 2005. Accessing sensor data using meta data: A virtual object ring buffer framework. ACM International Conference Proceedings Series, 2nd International Workshop on Data Management for Sensor Networks. Vol: 96. Pages 35 - 42.
Journal Article Rajasekar, Arcot; Moore, Reagan; Berman, Francine; Schottlaender, Brian. 2005. Digital preservation lifecycle management for multi-media collections. International Conference on Asian Digital Libraries 2005. Vol: 3815. Pages 380-384.
Journal Article Rajasekar, Arcot; Marciano, Richard; Moore, Reagan; Hou, Chien-Yi; Berman, Francine; Burstan, Lynn; Anderson, Steve; McEwen, Mellisa; Bornheimer, Bee; Schottlaender, Brian; DeClerck, Luc; Westbrook, Brad; Hutt, Arwen; Kozbial, Ardys; Frymann, Chris; Chu, Vivian. 2006. Building a demonstration prototype for the preservation of large-scale multimedia collections. Proceedings of the 2006 international conference on Digital government research. Vol: 151. Pages 287 - 288.
Journal Article Raxworthy, Christopher J.; Martínez-Meyer, Enrique; Horning, Ned; Nussbaum, Ronald A.; Schneider, Gregory E.; Ortega-Huerta, Miguel A.; Peterson, A. Townsend. 2003. Predicting distributions of known and unknown reptile species in Madagascar. Nature. Vol: 426. Pages 837-841.
Journal Article Rice, Nathan H.; Martínez-Meyer, Enrique; Peterson, A. Townsend. 2003. Ecological niche differentiation in the Aphelocoma jays: A phylogenetic perspective. Biological Journal of the Linnean Society. Vol: 80. Pages 369–383.
Journal Article Rizzoli, Andrea M.; Donatelli, Marcello; Muetzelfeldt, Robert; Otjens, Tonny; Svensson, Mats G.E.; van Evert, Frits K.; Villa, Ferdinando; Bolte, John. 2004. SEAMFRAME: a proposal for an integrated modelling framework for agricultural systems. Proceedings of the 8th ESA Congress. Pages 331-332.
Journal Article Rizzoli, Andrea M.; Svensson, Mats G.E.; Rowe, E. C.; Donatelli, Marcello; Muetzelfeldt, Robert; van der Wal, T.; Villa, Ferdinando. 2005. Modelling Framework (SeamFrame) requirements. System for Environmental and Agricultural Modelling; Linking European Science and Society.
Journal Article Rizzoli, Andrea M.; Athanasiadis, I. N.; Donatelli, Marcello; Huber, D.; Muetzelfeldt, Robert; van Evert, Frits K.; van de Broek, M.; van der Wal, T.; Villa, Ferdinando. 2005. Overall architectural design of SeamFrame. System for Environmental and Agricultural Modelling; Linking European Science and Society. Vol: 7.
Journal Article Rizzoli, Andrea M.; Donatelli, Marcello; Athanasiadis, I. N.; Villa, Ferdinando; Muetzelfeldt, Robert; Huber, D. 2005. Semantic links in integrated modelling frameworks. Edited by Zerger, A.; Argent, R. M.. Proceedings of the International Congress on Modelling and Simulation (MODSIM). Pages 704-710.
Journal Article Rizzoli, Andrea M.; Leavesley, G.; Ascough, J. C.; Argent, R. M.; Athanasiadis, I. N.; Brilhante, V.; Claeys, F. H. A.; David, O.; Donatelli, Marcello; Gijsbers, P.; Havlik, D.; Kassahun, A.; Krause, Peter; Quinn, N. W. T.; Scholten, H.; Sojda, R. S.; Villa, Ferdinando. 2008. Integrated modelling frameworks for environmental assessment and decision support. Edited by Jakeman. A. J., Voinov, A. A., Rizzoli, A.E., and Chen, S.H. Environmental Modelling, Software and Decision Support: State of the Art and New Perspectives. Vol: 3. Elsevier. Amsterdam. Pages 101-118.
Journal Article Romanello, Samantha J. 2005. A coming of age. LTER Network News.
Journal Article Romanello, Samantha J.; Beach, James H.; Bowers, Shawn; Jones, Matthew B.; Ludaescher, Bertram; Michener, William K.; Pennington, Deana D.; Rajasekar, Arcot; Schildhauer, Mark P. 2005. Creating and providing data management services for the biological and ecological sciences: Science environment for ecological knowledge. Proceedings of the 17th IEEE International Conference on Scientific and Statistical Database Management (SSDBM).
Journal Article Romanello, Samantha J. 2005. Informatics training lab opens at LNO. LTER Network News.
Journal Article Romanello, Samantha J.; Dervin, B.; Fortner, F.; Heimlich, J. Differences in natural and social scientists’ assessments of the philosophic nature of uncertainty and the implications for the communication of global climate change. Climatic Change.
Journal Article Romanello, Samantha J.; Dervin, B.; Fortner, F.; Heimlich, J. The nature of disagreements between natural and social scientists during discussions of global climate change. Global Environmental Change-Human and Policy Dimensions.
Journal Article Siqueira, Marinez D.F.; Peterson, A. Townsend. 2003. Consequences of global climate change for geographic distributions of Cerrado Tree species. Biota Neotropica. Vol: 3(2).
Journal Article Soberon Mainero, Jorge; Peterson, A. Townsend. 2004. Biodiversity informatics: Managing and applying primary biodiversity data. Philosophical Transactions of the Royal Society B-Biological Sciences. Vol: 359. Pages 689-698.
Journal Article Stockwell, David; Peterson, A. Townsend. 2003. Comparison of resolution of methods used in mapping biodiversity patterns from point occurrence data. Ecological Indicators. Vol: 3. Pages 213-221.
Journal Article Stockwell, David; Wang, Jason T.L. 2005. Biomonitoring, phylogenetics and anomaly aggregation systems. Lecture Notes in Computer Science. Vol: 3495. Pages 523-529.
Journal Article Stockwell, David. 2006. Improving ecological niche models by data mining large environmental datasets. Ecological Modelling. Vol: 192. Pages 188-196.
Journal Article Stockwell, David. 2006. Reconstruction of past climate using series with red noise. Australian Institute of Geologists News. Vol: 83. Pages 14.
Journal Article Stockwell, David; Beach, James H.; Stewart, Aimee; Vorontsov, Gregory; Vieglais, David A.; Scachetti Pereira, Ricardo. 2006. The use of the GARP genetic algorithm and Internet grid computing in the Lifemapper world atlas of species biodiversity. Ecological Modelling. Vol: 195. Pages 139-145.
Journal Article Stockwell, David; Ryder, O.; Youkharibac, P. Informatics issues in integrated biodiversity resource archives: Problems and solutions. Environmental Informatics.
Journal Article Thau, Dave; Ludaescher, Bertram. 2007. Reasoning about taxonomies in first-order logic. Ecological Informatics. Vol: 2 (3). Pages 195-209.
Journal Article Thau, Dave; Bowers, Shawn; Ludaescher, Bertram. 2008. Merging taxonomies under RCC-5 algebraic articulations. Proceedings of the CIKM Workshop on Ontologies and Information Systems for the Semantic Web. Pages 47-54.
Journal Article Thau, Dave. 2008. Reasoning about taxonomies and articulations. Proceedings of the 2008 EDBT Ph.D. workshop. Pages 11-19.
Journal Article Thomas, Chris D.; Williams, Stephen E.; Cameron, Alison; Green, Rhys E.; Bakkenes, Michel; Beaumont, Linda J.; Collingham, Yvonne C.; Erasmus, Barend F.N.; Siqueira, Marinez D.F.; Grainger, Alan; Hannah, Lee; Hughes, Lesley; Huntley, Brian; van Jaarsveld, Albert S.; Midgley, Guy F.; Miles, Lera; Ortega-Huerta, Miguel A.; Peterson, A. Townsend; Phillips, Oliver. 2004. Biodiversity conservation: Uncertainty in predictions of extinction risk/Effects of changes in climate and land use/Climate change and extinction risk (reply). Brief Communications Arising. Vol: 430(6995). Pages 12.
Journal Article Thomas, Chris D.; Cameron, Alison; Green, Rhys E.; Bakkenes, Michel; Beaumont, Linda J.; Collingham, Yvonne C.; Erasmus, Barend F.N.; Siqueira, Marinez D.F.; Grainger, Alan; Hannah, Lee; Hughes, Lesley; Huntley, Brian; van Jaarsveld, Albert S.; Midgley, Guy F.; Miles, Lera; Ortega-Huerta, Miguel A.; Peterson, A. Townsend; Phillips, Oliver; Williams, Stephen E. 2004. Extinction risk from climate change. Nature. Vol: 427. Pages 145-148.
Book Chapter Vanderbilt, Kristin; Michener, William K. 2007. Information management standards and strategies for net primary production data. Edited by Fahey, Timothy J.; Knapp, Alan K. Principles and Standards for Measuring Primary Production. Oxford Scholarship.
Journal Article van Evert, Frits K.; Holzworth, Dean; Muetzelfeldt, Robert; Rizzoli, Andrea M.; Villa, Ferdinando. 2005. Convergence among integrated modeling frameworks. Proceedings of the International Congress on Modelling and Simulation (MODSIM).
Journal Article Vernon, Frank; Hansen, Thor A.; Lindquist, Kent; Ludaescher, Bertram; Orcutt, John; Rajasekar, Arcot. 2006. ROADNET: A Real-time Data Aware System for Earth, Oceanographic, and Environmental Applications. EOS, Transactions, American Geophysical Union. Vol: 84(46).
Book Chapter Villa, Ferdinando; Voinov, A.; Fitz, C.; Costanza, Robert. 2004. Performance and goodness of fit of complex simulation models: A multi-criteria approach to model calibration using the Model Performance Index (MPI) framework. Edited by Costanza, R.; Voinov, A.. Landscape Simulation Modelling: a Spatially Explicit, Dynamic Approach. Springer-Verlag. New York. Pages 77-118.
Journal Article Villa, Ferdinando. 2005. A semantic model of computation for natural system modelling. Proceedings of the International Congress on Modelling and Simulation (MODSIM). Pages 751-757.
Journal Article Villa, Ferdinando. 2005. Book review: H.G. Natke, introduction to multi-disciplinary model building. Ecological Economics. Vol: 53(3). Pages 431-432.
Journal Article Villa, Ferdinando. 2005. Design of the domain manager component of SEAMFRAME. Refereed European Union report SEAMLESS. Vol: PD5.3.2. Pages 54.
Journal Article Villa, Ferdinando; Athanasiadis, I. N. 2005. Guidelines for populating the SEAMLESS knowledge base. Refereed European Union report SEAMLESS. Vol: PD4.2.1. Pages 20.
Journal Article Villa, Ferdinando; Ceroni, M.; de Groot, Rudolf. 2005. Setting the basis for a worldwide coordination for the economic valuation of ecosystem services. Gund White paper. Vol: 39(6). Pages 887-899.
Journal Article Villa, Ferdinando; Donatelli, Marcello; Rizzoli, Andrea M.; Krause, Peter; Kralisch, Sven; van Evert, Frits K. 2006. Declarative modelling for architecture independence and data/model integration: A case study. IEMSS Summit on Environmental Modelling.
Journal Article Villa, Ferdinando; Athanasiadis, I. N.; Johnson, Gary W. 2007. An ontology for the semantic modelling of natural systems.. 15th Annual International Conference on Intelligent Systems for Molecular Biology (ISMB) & 6th European Conference on Computational Biology (ECCB).
Journal Article Villa, Ferdinando. 2007. A semantic framework and software design to enable the transparent integration, reorganization and discovery of natural systems knowledge. Journal of Intelligent Information Systems. Vol: 29(1). Pages 79-96.
Journal Article Villa, Ferdinando; Athanasiadis, I. N.; Rizzoli, Andrea M. 2007. The SEAMLESS knowledge manager. Refereed European Union report SEAMLESS. Vol: PD5.4.2.2. Pages 14.
Journal Article Villa, Ferdinando; Athanasiadis, I. N.; Rizzoli, Andrea M. 2009. Modelling with knowledge: A review of emerging semantic approaches to environmental modelling. Environmental Modelling & Software. Vol: 24(5). Pages 577-587.
Journal Article Villa, Ferdinando; Krivov, Serguei. Semantically-driven databases: Towards machine-assisted knowledge discovery. Environmental Modelling & Software.
Journal Article Villa, Ferdinando; Athanasiadis, I. N.; Krivov, Serguei; Johnson, Gary W.; Rizzoli, Andrea M. Thinklab: An infrastructure for semantic decision support systems. Environmental Modelling & Software.
Journal Article Villa, Ferdinando; de Groot, Rudolf; Ceroni, M.; Zijlstra, M. Towards a coordinated strategy to facilitate and oversee a transparent practice of ecosystem services valuation. Ecological Economics.
Journal Article Wan, Michael; Rajasekar, Arcot; Moore, Reagan; Andrews, Phil. 2003. A simple mass storage system for the SRB data grid. Proceedings of the 20th IEEE/11th NASA Goddard Conference on Mass Storage Systems and Technologies (MSS). Pages 20-25.
Journal Article Wang, Guiming; Goguen, Joseph; Nam, Young-Kwang; Lin, Kai. 2004. Critical points for interactive schema matching. Advanced Web Technologies and Applications. Vol: 3007. Pages 654-664.
Journal Article Wang, Jianwu; Altintas, Ilkay; Berkley, Chad; Gilbert, Lucas; Jones, Matthew B. 2008. A high-level distributed execution framework for scientific workflows. 4th IEEE International Conference on e-Science. Pages 634-639.
Journal Article Wiley, O.; McNyset, Kristina M.; Peterson, A. Townsend; Robins, C. R.; Stewart, Aimee. 2003. Niche modeling and geographic range predictions in the marine environment using a machine-learning algorithm. Oceanography. Vol: 16. Pages 120-127.
Book Chapter Wiley, O.; Peterson, A. Townsend. 2004. Biodiversity and the Internet: Building and using the virtual world museum. Edited by Scharl, A.. Environmental Online Communication. Springer-Verlag. London. Pages 91-99.
Journal Article Zhang, Jianting; Pennington, Deana D.; Michener, William K. 2005. Using web services and scientific workflow for species distribution prediction modeling. 6th International Conference on Web-Age Information Management (WAIM). Vol: 3739. Pages 610-617.
Journal Article Zhang, Jianting; Pennington, Deana D.; Michener, William K. 2005. Validating compositions of geospatial processing web services in a scientific workflow environment. 3rd IEEE International Conference on Web Services (ICWS). Pages 821-822.
Journal Article Zhang, Jianting. 2006. Ontology-driven composition and validation of scientific grid workflows in Kepler: A case study of hyperspectral image processing. Proceedings of the 5th International Conference on Grid and Cooperative Computing (GCC). Pages 282-289.
Journal Article Zhang, Jianting; Gruenwald, Le. 2006. Opening the black box of feature extraction: Incorporating visualization into high-dimensional data mining processes. 6th International Conference on Data Mining (ICDM). Pages 1188-1192.
Journal Article Zhang, Jianting; Herbert, Katherine G.; Wang, Jason T.L.; Piel, William; Stockwell, David. 2006. PhyloMiner: A tool for evolutionary data analysis. Proceedings of the 18th IEEE International Conference on Scientific and Statistical Database Management (SSDBM). Pages 129-132.
Journal Article Zhang, Jianting. 2006. Tracking dynamics of geospatial phenomena in distributed and heterogeneous environments using scientific workflow and web services technologies. Proceedings of the 5th International Conference on Grid and Cooperative Computing (GCC).
Journal Article Zhang, Jianting; Pennington, Deana D.; Liu, Xianhua. 2007. GBD-Explorer: Extending open source java GIS for exploring ecoregion-based biodiversity data. Ecological Economics. Vol: 2(2). Pages 94-102.
Journal Article Zhang, Jianting; Pennington, Deana D.; Michener, William K. 2007. Performance evaluations of geospatial web services composition and invocation. Proceedings of the 5th IEEE International Conference on Web Services (ICWS).
Journal Article Zinn, Daniel; Bowers, Shawn; McPhillips, Timothy; Ludaescher, Bertram. 2008. X-CSR: Dataflow optimization for XML processing pipelines. International Conference on Data Engineering (ICDE). Pages 1.