Publications

• A New Approach for Publishing Workflows: Abstractions, Standards, and Linked Data, Daniel Garijo, Yolanda Gil. To appear in Proceedings of the Sixth Workshop on Workflows in Support of Large-Scale Science (WORKS'11), held in conjunction with SC 2011, Seattle, Washington, 2011
  


• Making Data Analysis Expertise Broadly Accessible through Workflows, Matheus Hauder, Yolanda Gil, Ricky Sethi, Yan Liu, Hyunjoon Jo. To appear in Proceedings of the Sixth Workshop on Workflows in Support of Large-Scale Science (WORKS'11), held in conjunction with SC 2011, Seattle, Washington, 2011
  


• Linked Data for Network Science, Paul Groth, Yolanda Gil. To appear in First International Workshop on Linked Science at the International Semantic Web Conference (ISWC), Bonn, Germany, 2011
  


• TellMe: Learning Procedures from Tutorial Instruction, Yolanda Gil, Varun Ratnakar, Christian Fritz. To appear in Proceedings of the ACM International Conference on Intelligent User Interfaces, Palo Alto, CA. 2011
  


• A Semantic Framework for Automatic Generation of Computational Workflows Using Distributed Data and Component Catalogs, Yolanda Gil, Pedro Antonio Gonzalez-Calero, Jihie Kim, Joshua Moody, Varun Ratnakar. To appear in the Journal of Experimental and Theoretical Artificial Intelligence, 2010
  


• Assisting Scientists with Complex Data Analysis Tasks through Semantic Workflows., Yolanda Gil, Varun Ratnakar, Christian Fritz. In AAAI Fall Symposium Series on Proactive Assistant Agents, Arlington, VA, November 2010
  


• Parameterized Specification, Configuration, and Execution of Data-Intensive Scientific Workflows., Vijay Kumar, Tahsin Kurc, Varun Ratnakar, Jihie Kim, Gaurang Mehta, Karan Vahi, Yoonju Lee Nelson, P. Sadayappan, Ewa Deelman, Yolanda Gil, Mary Hall, Joel Saltz. In Cluster Computing Journal, Vol 13, 2010
  


• "High Performance Computing and Grid Computing for Integrative Biomedical Research", Tahsin Kurc, Shannon Hastings, Vijay Kumar, Stephen Langella, Ashish Sharma, Tony Pan, Scott Oster, David Ervin, Justin Permar, Sivaramakrishnan Narayanan, Yolanda Gil, Ewa Deelman, Mary Hall, Joel Saltz. To appear in Journal of High Performance Computing Applications, 2010
  


• "Reasoning about the Appropriate Use of Private Data through Computational Workflows", Yolanda Gil, Christian Fritz. In AAAI Spring Symposium on Privacy Management, Stanford, CA, March 23-25, 2010
  


• "Parameterized Specification, Configuration, and Execution of Data-Intensive Scientific Workflows, Vijay S. Kumar, Tahsin Kurc, Varun Ratnakar, Jihie Kim, Gaurang Mehta, Karan Vahi, Yoonju Lee Nelson, P Sadayappan, Ewa Deelman, Yolanda Gil, Mary Hall, Joel Saltz. To appear in Cluster Computing Journal, 2010
  


• "Expressive Reusable Workflow Templates", Yolanda Gil, Paul Groth, Varun Ratnakar, Christian Fritz. To appear in Proceedings of the Fifth IEEE International Conference on e-Science, 2009
  


• "Workflow Matching Using Semantic Metadata", Yolanda Gil, Jihie Kim, Yolanda Gil, Gonzalo Florez, Varun Ratnakar, Pedro A. Gonzalez Calero. In Proceedings of the Fifth International Conference on Knowledge Capture (K-CAP), 2009
  


• "From Data to Knowledge to Discoveries: Scientific Workflows and Artificial Intelligence", Yolanda Gil. In Scientific Programming, Volume 17, Number 3, 2009.
  


• "Principles for Interactive Acquisition and Validation of Workflows", Yolanda Gil, Jihie Kim, Marc Spraragen. To appear in the Journal of Experimental and Theoretical Artificial Intelligence, 2010
  


• Analyzing the Gap Between Workflows and their Natural Language Descriptions, Paul Groth, Yolanda Gil. In Proceedings of the IEEE Third International Workshop on Scientific Workflows (SWF), Los Angeles, CA, July 10, 2009
  


• Scaffolding Instructions to Learn Procedures from Users, Paul Groth, Yolanda Gil. In AAAI Spring Symposium on Agents that Learn from Human Teachers, Stanford, CA, March 23-25, 2009
  


• "A Scientific Workflow Construction Command Line", Paul Groth, Yolanda Gil. In 2009 ACM International Conference on Intelligent User Interfaces (IUI), Sanibel, FL, February 8-11, 2009
  


• "Provenance Trails in the Wings/Pegasus Workflow System", Jihie Kim, Ewa Deelman, Yolanda Gil, Gaurang Mehta, Varun Ratnakar. In Concurrency and Computation: Practice and Experience, Special Issue on the First Provenance Challenge, Vol 20, Issue 5, April 2008
  


• "Scientific Software as Workflows: From Discovery to Distribution", David Woollard, Nenad Medvidovic, Yolanda Gil, Chris Mattmann. In IEEE Software, Special Issue on Developing Scientific Software, July/August 2008
  


• "Designing and Parameterizing a Workflow for Optimization: A Case Study in Biomedical Imaging.", Vijay Kumar, Mary Hall, Jihie Kim, Yolanda Gil, Tahsin Kurc, Ewa Deelman, Joel Saltz. In Proceedings of NSF Workshop on Next Generation Software, held in conjunction with the IEEE International Symposium on Parallel and Distributed Processing (IPDPS-08), Miami, FL, April 2008
  


• "Self-Configuring Applications for Heterogeneous Systems: Program Composition and Optimization Using Cognitive Techniques", Mary Hall, Yolanda Gil, Robert Lucas. In Proceedings of the IEEE, Special Issue on Cutting-Edge Computing: Using New Commodity Architectures, Volume 96, Issue 5, May 2008
  


• "Examining the Challenges of Scientific Workflows", Yolanda Gil, Ewa Deelman, Mark Ellisman, Thomas Fahringer, Geoffrey Fox, Dennis Gannon, Carole Goble, Miron Livny, Luc Moreau, Jim Myers. In IEEE Computer, vol. 40, no. 12, pp. 24-32, December, 2007
  


• "Wings for Pegasus: Creating Large-Scale Scientific Applications Using Semantic Representations of Computational Workflows", Yolanda Gil, Varun Ratnakar, Ewa Deelman, Gaurang Mehta, Jihie Kim. In Proceedings of the 19th Annual Conference on Innovative Applications of Artificial Intelligence (IAAI), Vancouver, British Columbia, Canada, July 22-26, 2007
  


• "Workflow Composition", Yolanda Gil. In In Workflows for e-Science, D. Gannon, E. Deelman, M. Shields, I. Taylor (Eds), Springer Verlag, 2006
  


• "Managing Large-Scale Scientific Workflows in Distributed Environments: Experiences and Challenges", Ewa Deelman, Yolanda Gil. In Proceedings of the Workshop on Scientific Workflows and Business Workflow Standards in e-Science, The Second IEEE International Conference on e-Science and Grid Computing, Amsterdam, The Netherlands, December 4-6, 2006
  


• "Wings for Pegasus: A Semantic Approach to Creating Very Large Scientific Workflows", Yolanda Gil, Varun Ratnakar, Ewa Deelman, Marc Spraragen, Jihie Kim. In Proceedings of the OWL: Experiences and Directions 2006 (OWLED-06), Athens, GA, November 10-11, 2006
  


• "Semantic Metadata Generation for Large Scientific Workflows", Jihie Kim, Yolanda Gil, Varun Ratnakar. In Proceedings of the Fifth International Semantic Web Conference (ISWC-06), Athens, GA, November 5-9, 2006
  


• "On Agents and Grids: Creating the Fabric of a New Generation of Distributed Intelligent Systems", Yolanda Gil. In Journal of Web Semantics, Volume 4, Issue 2, June 2006
  


• "Workflow Composition", Yolanda Gil. In "Workflows for e-Science", D. Gannon, E. Deelman, M. Shields, I.Taylor (Eds)
  


• "Semantic Metadata Generation for Large Scientific Workflows", Jihie Kim, Yolanda Gil, Varun Ratnakar. In International Semantic Web Conference, ISWC-2006, Athens, Georgia, USA
  


• "Wings for Pegasus: A Semantic Approach to Creating Very Large Scientific Workflows", Yolanda Gil, Varun Ratnakar, Ewa Deelman, Marc Sparagen, Jihie Kim. In OWL: Experiences and Directions 2006, OWL-2006, Athens, Georgia, USA