Yolanda Gil: Selected Publications

  2016 (5)
Towards the Geoscience Paper of the Future: Best Practices for Documenting and Sharing Research from Data to Software to Provenance. Gil, Y.; David, C. H.; Demir, I.; Essawy, B. T.; Fulweiler, R. W.; Goodall, J. L.; Karlstrom, L.; Lee, H.; Mills, H. J.; Oh, J.; Pierce, S. A; Pope, A.; Tzeng, M. W.; Villamizar, S. R.; and Yu, X. Earth and Space Sciences, forthcoming. 2016.
Towards the Geoscience Paper of the Future: Best Practices for Documenting and Sharing Research from Data to Software to Provenance [pdf]Paper   Towards the Geoscience Paper of the Future: Best Practices for Documenting and Sharing Research from Data to Software to Provenance [link]Link   bibtex
Automated Hypothesis Testing with Large Scientific Data Repositories. Gil, Y.; Garijo, D.; Ratnakar, V.; Mayani, R.; Adusumilli, R.; Boyce, H.; and Mallick, P. In Proceedings of the Fourth Annual Conference on Advances in Cognitive Systems (ACS), Evanston, IL, 2016.
Automated Hypothesis Testing with Large Scientific Data Repositories [pdf]Paper   bibtex
Teaching Big Data Analytics Skills with Intelligent Workflow Systems. Gil, Y. In Proceedings of the Sixth Symposium on Educational Advances in Artificial Intelligence (EAAI), colocated with the National Conference of the Association for the Advancement of Artificial Intelligence (AAAI), Phoenix, AZ, 2016.
Teaching Big Data Analytics Skills with Intelligent Workflow Systems [pdf]Paper   bibtex
Dynamically Generated Metadata and Replanning by Interleaving Workflow Generation and Execution. Gil, Y.; and Ratnakar, V. In Proceedings of the Tenth IEEE International Conference on Semantic Computing (ICSC), Irvine, CA, 2016.
Dynamically Generated Metadata and Replanning by Interleaving Workflow Generation and Execution [pdf]Paper   bibtex
Cyber-Innovated Watershed Research at the Shale Hills Critical Zone Observatory. Yu, X.; Duffy, C.; Gil, Y.; Leonard, L.; Bhatt, G.; ; and Thomas, E. IEEE Systems Journal, forthcoming. 2016.
Cyber-Innovated Watershed Research at the Shale Hills Critical Zone Observatory [pdf]Paper   bibtex
  2015 (16)
Field Data Management: Integrating Cyberscience and Geoscience. Mookerjee, M.; Vieira, D.; Chan, M. A.; Gil, Y.; Pavlis, T. L.; Spear, F. S.; and Tikoff, B. Earth and Space Science News, 96(20). 2015.
Field Data Management: Integrating Cyberscience and Geoscience [link]Link   bibtex
Open Science and Collaboration for Enhancing NeuroImaging Genetics through Meta-Analysis (ENIGMA) through the Organic Data Science Framework. Jahanshad, N.; Madsen, S.; Azatian, Y.; Hibar, D. P.; Thompson, P. M.; and Gil, Y. In Science of Team Science Conference (SciTS), Bethesda, MD, 2015.
Open Science and Collaboration for Enhancing NeuroImaging Genetics through Meta-Analysis (ENIGMA) through the Organic Data Science Framework [pdf]Paper   bibtex
We Need to Talk: Facilitating communication between field-based geoscience and cyberinfrastructure communities. Mookerjee, M.; Vieira, D.; Chan, M. A.; Gil, Y.; Pavlis, T. L.; Spear, F. S.; and Tikoff, B. GSA Today, 25(11). 2015.
We Need to Talk: Facilitating communication between field-based geoscience and cyberinfrastructure communities [link]Link   bibtex
Exploring Synergies between Machine Learning and Knowledge Representation to Capture Scientific Knowledge. Ebert-Uphoff, I.; and Gil, Y. In First International Workshop on Capturing Scientific Knowledge (SciKnow), Palisades, NY, 2015.
Exploring Synergies between Machine Learning and Knowledge Representation to Capture Scientific Knowledge [pdf]Paper   bibtex
The Geoscience Paper of the Future Initiative: Training Scientists in Best Practices of Software Sharing. Gil, Y.; Duffy, C.; Mattmann, C.; Robinson, E.; David, C.; Demir, I.; Essawy, B.; Fulweiler, R. W.; Goodall, J.; Karlstrom, L.; andHeath Mills, K. L.; Oh, J.; Pierce, S.; Pope, A.; Tzeng, M.; Venayagamoorthy, K.; Villamizar, S.; and Yu, X. In Third Workshop on Sustainable Software for Science: Practice and Experiences (WSSSPE3), Boulder, CO, 2015.
The Geoscience Paper of the Future Initiative: Training Scientists in Best Practices of Software Sharing [pdf]Paper   bibtex
OntoSoft: Capturing Scientific Software Metadata. Gil, Y.; Ratnakar, V.; and Garijo, D. In Proceedings of the Eighth ACM International Conference on Knowledge Capture, Palisades, NY, 2015.
OntoSoft: Capturing Scientific Software Metadata [pdf]Paper   bibtex
The Provenance Bee Wiki: Tracking the Growth of Semantic Wiki Communities. Gil, Y.; Kapoor, D.; Markham, R.; and Ratnakar, V. In Proceedings of the Eighth ACM International Conference on Knowledge Capture, Palisades, NY, 2015.
The Provenance Bee Wiki: Tracking the Growth of Semantic Wiki Communities [pdf]Paper   bibtex
DRAT: An Unobtrusive, Scalable Approach to Large Scale Software License Analysis. Mattmann, C. A.; Oh, J.; Palsulich, T.; McGibbney, L. J.; Gil, Y.; and Ratnakar, V. In Proceedings of the Fourth International Workshop on Software Mining, held in conjunction with the 30th IEEE/ACM International Conference on Automated Software Engineering (ASE), Lincoln, NE, 2015.
DRAT: An Unobtrusive, Scalable Approach to Large Scale Software License Analysis [pdf]Paper   bibtex
Use of Semantic Workflows to Enhance Transparency and Reproducibility in Clinical Omics. Zheng, C. L; Ratnakar, V.; Gil, Y.; and McWeeney, S. K Genome Medicine, 7(73). 2015.
Use of Semantic Workflows to Enhance Transparency and Reproducibility in Clinical Omics [pdf]Paper   Use of Semantic Workflows to Enhance Transparency and Reproducibility in Clinical Omics [link]Link   bibtex
A Task-Centered Framework for Computationally-Grounded Science Collaborations. Gil, Y.; Michel, F.; Ratnakar, V.; Hauder, M.; Duffy, C.; Dugan, H.; and Hanson, P. In Proceedings of the Eleventh IEEE International Conference on eScience, Munich, Germany, 2015.
A Task-Centered Framework for Computationally-Grounded Science Collaborations [pdf]Paper   bibtex
A Virtual Crowdsourcing Community for Open Collaboration in Science Processes. Michel, F.; Gil, Y.; Ratnakar, V.; and Hauder, M. In Proceedings of the Americas Conference on Information Systems (AMCIS), Puerto Rico, 2015.
A Virtual Crowdsourcing Community for Open Collaboration in Science Processes [pdf]Paper   bibtex
A Semantic, Task-Centered Collaborative Framework for Science. Gil, Y.; Michel, F.; Ratnakar, V.; and Hauder, M. In Proceedings of the Twelfth European Semantic Web Conference (ESWC), Portoroz, Slovenia, 2015.
A Semantic, Task-Centered Collaborative Framework for Science [pdf]Paper   bibtex
Supporting Open Collaboration in Science through Explicit and Linked Semantic Description of Processes. Gil, Y.; Michel, F.; Ratnakar, V.; Read, J.; Hauder, M.; Duffy, C.; Hanson, P.; and Dugan, H. In Proceedings of the Twelfth European Semantic Web Conference (ESWC), Portoroz, Slovenia, 2015.
Supporting Open Collaboration in Science through Explicit and Linked Semantic Description of Processes [pdf]Paper   bibtex
Human Tutorial Instruction in the Raw. Gil, Y. ACM Transactions on Interactive Intelligent Systems, 5(1). 2015.
Human Tutorial Instruction in the Raw [pdf]Paper   bibtex
EarthCube 2015 Highlights. 2015. EarthCube Project Report EC-2015-1
EarthCube 2015 Highlights [link]Paper   bibtex
Organic Data Science: A Task-Centered Interface to On-Line Collaboration in Science. Gil, Y.; Michel, F.; Ratnakar, V.; and Hauder, M. In Proceedings of the ACM International Conference on Intelligent User Interfaces, Atlanta, GA, 2015.
Organic Data Science: A Task-Centered Interface to On-Line Collaboration in Science [pdf]Paper   bibtex
  2014 (19)
The AAAI Fall Symposium on Discovery Informatics: AI Takes a Science-Centered View on Big Data. Burns, G. A.; Gil, Y.; Villanueva-Rosales, N.; and Liu, Y. AI Magazine, 35(2). 2014.
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Announcing the SIGAI Career Network and Conference. Das, S.; Epstein, S. L.; and Gil, Y. AI Matters, 1(1). 2014.
Announcing the SIGAI Career Network and Conference [pdf]Paper   Announcing the SIGAI Career Network and Conference [link]Link   bibtex
Artificial Intelligence: No Longer Just for You and Me. Gil, Y. AI Matters, 1(1). 2014.
Artificial Intelligence: No Longer Just for You and Me [pdf]Paper   Artificial Intelligence: No Longer Just for You and Me [link]Link   bibtex
Ten Simple Rules for Starting a Research Group. Gil, Y. AI Matters, 1(2). 2014.
Ten Simple Rules for Starting a Research Group [link]Link   Ten Simple Rules for Starting a Research Group [link]Paper   bibtex
Open Geospatial Consortium Testbed 10 Provenance Engineering Report. Maso, J.; Closa, G.; Gil, Y.; and Pross, B. 2014. Open Geospatial Consortium (OGC) Technical Report 14-001
Open Geospatial Consortium Testbed 10 Provenance Engineering Report [link]Paper   bibtex
EarthCube EC3 2014 Field Trip Report. Gil, Y. 2014. Report of the EarthCube Research Coodination Network on 'Earth-Centered Communication for Cyberinfrastructure: Challenges of field data collection, management, and integration'
EarthCube EC3 2014 Field Trip Report [link]Paper   bibtex
EarthCube: Past, Present, and Future. Gil, Y.; Chan, M.; Gomez, B.; and (Eds), B. C. 2014. EarthCube Project Report EC-2014-3
EarthCube: Past, Present, and Future [link]Paper   bibtex
Amplify Scientific Discovery with Artificial Intelligence. Gil, Y.; Greaves, M.; Hendler, J.; and Hirsh, H. Science, 346(6206): 171-172. 2014.
Amplify Scientific Discovery with Artificial Intelligence [link]Link   bibtex
Teaching Parallelism Without Programming: A Data Science Curriculum for Non-CS Students. Gil, Y. In Proceedings of the Workshop on Education for High-Performance Computing (EduHPC), held in conjunction with the IEEE ACM International Conference on High Performance Computing (SC), New Orleans, LA, 2014.
Teaching Parallelism Without Programming: A Data Science Curriculum for Non-CS Students [pdf]Paper   bibtex
Collaborative Software Development Needs in Geosciences. Gil, Y.; Moon, E.; and Howison, J. In Proceedings of the Second Workshop on Sustainable Software for Science: Practice and Experiences (WSSSPE2), held in conjunction with the IEEE ACM International Conference on High Performance Computing (SC), New Orleans, LA, 2014.
Collaborative Software Development Needs in Geosciences [pdf]Paper   bibtex
Towards Workflow Ecosystems Through Semantic and Standard Representations. Garijo, D.; Gil, Y.; and Corcho, O. In Proceedings of the Ninth Workshop on Workflows in Support of Large-Scale Science (WORKS), held in conjunction with the IEEE ACM International Conference on High-Performance Computing (SC), New Orleans, LA, 2014.
Towards Workflow Ecosystems Through Semantic and Standard Representations [pdf]Paper   bibtex
Workflow Reuse in Practice: A Study of Neuroimaging Pipeline Users . Garijo, D.; Corcho, O.; Gil, Y.; Braskie, M. N.; Hibar, D.; Hua, X.; Jahanshad, N.; Thompson, P.; and Toga, A. W. In Proceedings of the IEEE Conference on e-Science, Guarujua, Brazil, 2014.
Workflow Reuse in Practice: A Study of Neuroimaging Pipeline Users  [pdf]Paper   bibtex
FragFlow: Automated Fragment Detection in Scientific Workflows . Garijo, D.; Corcho, O.; Gil, Y.; Gutman, B. A.; Dinov, I. D.; Thompson, P.; and Toga, A. W. In Proceedings of the IEEE Conference on e-Science, Guarujua, Brazil, 2014.
FragFlow: Automated Fragment Detection in Scientific Workflows  [pdf]Paper   bibtex   6 downloads
Intelligent Workflow Systems and Provenance-Aware Software. Gil, Y. In Proceedings of the Seventh International Congress on Environmental Modeling and Software, San Diego, CA, 2014.
Intelligent Workflow Systems and Provenance-Aware Software [pdf]Paper   Intelligent Workflow Systems and Provenance-Aware Software [pdf]Link   bibtex   31 downloads
Geospatial Data Integration with Linked Data and Provenance Tracking. Harth, A.; and Gil, Y. 2014. W3C/OGC Workshop on Linking Geospatial Data
Geospatial Data Integration with Linked Data and Provenance Tracking [pdf]Paper   bibtex   4 downloads
User Requirements for Geospatial Provenance. Garijo, D.; Gil, Y.; and Harth, A. 2014. Provenance Analytics, co-located with the Fifth International Provenance and Annotation Workshop (IPAW)
User Requirements for Geospatial Provenance [pdf]Paper   bibtex   6 downloads
Challenges in Modeling Geospatial Provenance. Garijo, D.; Gil, Y.; and Harth, A. In Proceedings of the Fifth International Provenance and Annotation Workshop (IPAW), Cologne, Germany, 2014.
Challenges in Modeling Geospatial Provenance [pdf]Paper   bibtex   5 downloads
Ten Simple Rules for the Care and Feeding of Scientific Data. Goodman, A.; Pepe, A.; Blocker, A. W.; Borgman, C. L.; Cranmer, K.; Crosas, M.; Stefano, R. D.; Gil, Y.; Groth, P.; Hedstrom, M.; Hogg, D. W.; Kashyap, V.; Mahabal, A.; Siemiginowska, A.; and Slavkovic, A. PLOS Computational Biology, 10. 2014.
Ten Simple Rules for the Care and Feeding of Scientific Data [link]Paper   Ten Simple Rules for the Care and Feeding of Scientific Data [link]Link   bibtex
Similarity Assessment and Efficient Retrieval of Semantic Workflows. Bergmann, R.; and Gil, Y. Information Systems Journal, 40. 2014.
Similarity Assessment and Efficient Retrieval of Semantic Workflows [pdf]Paper   Similarity Assessment and Efficient Retrieval of Semantic Workflows [link]Link   bibtex   22 downloads
  2013 (19)
Model Evaluation Using the NASA Regional Climate Model Evaluation System (RCMES). Mattmann, C. A.; Waliser, D.; Kim, J.; Ramirez, P.; Goodale, C.; Hart, A. F.; Loikith, P.; Lee, H.; Joyce, M.; Boustani, M.; Khudikyan, S.; Whitehall, K.; Whittell, J.; Zimdars, P.; Crichton, D.; Gil, Y.; and Cinquini, L. 2013. IEEE Earthzine
Model Evaluation Using the NASA Regional Climate Model Evaluation System (RCMES) [link]Link   bibtex
Quantifying Reproducibility in Computational Biology: The Case of the Tuberculosis Drugome. Garijo, D.; Kinnings, S.; Xie, L.; Xie, L.; Zhang, Y.; Bourne, P. E.; and Gil, Y. PLOS ONE, . 2013.
Quantifying Reproducibility in Computational Biology: The Case of the Tuberculosis Drugome [link]Link   bibtex   16 downloads
Time-Bound Analytic Tasks on Large Datasets through Dynamic Configuration of Workflows. Gil, Y.; Ratnakar, V.; Verma, R.; Hart, A.; Ramirez, P.; Mattmann, C.; Sumarlidason, A.; and Park, S. L. In Proceedings of the Eighth Workshop on Workflows in Support of Large-Scale Science (WORKS), held in conjunction with SC 2013, Denver, CO, 2013.
Time-Bound Analytic Tasks on Large Datasets through Dynamic Configuration of Workflows [pdf]Paper   bibtex   8 downloads
Capturing Data Analysis Expertise with Visualization in Workflows. Kale, D.; Di, S.; Liu, Y.; and Gil, Y. In AAAI Fall Symposium on Discovery Informatics: AI Takes a Science-Centered View on Big Data, Arlington, Virginia, 2013.
Capturing Data Analysis Expertise with Visualization in Workflows [pdf]Paper   bibtex   8 downloads
Common Motifs in Scientific Workflows: An Empirical Analysis. Garijo, D.; Alper, P.; Belhajjame, K.; Corcho, O.; Gil, Y.; and Goble, C. Future Generation Computer Systems, . 2013.
Common Motifs in Scientific Workflows: An Empirical Analysis [link]Link   bibtex   6 downloads
Large-Scale Multimedia Content Analysis Using Scientific Workflows. Sethi, R. J.; Gil, Y.; Jo, H.; and Philpot, A. In Twenty-First ACM International Conference on Multimedia, Barcelona, Spain, 2013.
Large-Scale Multimedia Content Analysis Using Scientific Workflows [pdf]Paper   bibtex   5 downloads
Structured Analysis of the ISI Atomic Pair Actions Dataset Using Workflows. Sethi, R. J.; Jo, H.; and Gil, Y. Pattern Recognition Letters, 34(15). 2013.
Structured Analysis of the ISI Atomic Pair Actions Dataset Using Workflows [link]Link   bibtex   5 downloads
The Democratization of Semantic Properties: An Analysis of Semantic Wikis. Gil, Y.; Knight, A.; Zhang, K.; Zhang, L.; Ratnakar, V.; and Sethi, R. In Seventh IEEE International Conference on Semantic Computing (ICSC), Irvine, CA, 2013.
The Democratization of Semantic Properties: An Analysis of Semantic Wikis [pdf]Paper   bibtex   13 downloads
Mapping Semantic Workflows to Alternative Workflow Execution Engines. Gil, Y. In Seventh IEEE International Conference on Semantic Computing (ICSC), Irvine, CA, 2013.
Mapping Semantic Workflows to Alternative Workflow Execution Engines [pdf]Paper   bibtex   6 downloads
Knowledge Capture in the Wild: A Perspective from Semantic Wiki Communities. Gil, Y.; and Ratnakar, V. In Seventh ACM International Conference on Knowledge Capture (K-CAP), Banff, Canada, 2013.
Knowledge Capture in the Wild: A Perspective from Semantic Wiki Communities [pdf]Paper   bibtex   9 downloads
Detecting Common Scientific Workflow Fragments Using Templates and Execution Provenance. Garijo, D.; Corcho, O.; and Gil, Y. In Seventh ACM International Conference on Knowledge Capture (K-CAP), Banff, Canada, 2013.
Detecting Common Scientific Workflow Fragments Using Templates and Execution Provenance [pdf]Paper   bibtex   3 downloads
Social Knowledge Collection. Gil, Y. In Handbook of Human Computation. Springer, 2013.
Social Knowledge Collection [pdf]Paper   Social Knowledge Collection [link]Link   bibtex   buy   14 downloads
Using Semantic Workflows to Disseminate Best Practices and Accelerate Discoveries in Multi-Omic Data Analysis. Gil, Y.; McWeeney, S.; and Mason, C. E. In AAAI Workshop on Expanding the Boundaries of Health Informatics using AI (HIAI), held in conjunction with the Conference of the Association for the Advancement of Artificial Intelligence (AAAI), Bellevue, WA, 2013.
Using Semantic Workflows to Disseminate Best Practices and Accelerate Discoveries in Multi-Omic Data Analysis [pdf]Paper   bibtex   9 downloads
Intelligent Assistance to Disseminate Best Practices and Accelerate Discoveries in Cancer Omics. Gil, Y.; Mason, C. E.; Zheng, C.; and McWeeney, S. 2013. 2013 NCI EDRN Cancer Biomarkers Bioinformatics Workshop, Pasadena, CA
Intelligent Assistance to Disseminate Best Practices and Accelerate Discoveries in Cancer Omics [pdf]Paper   bibtex   1 download
Towards Task-Centered Network Models through Semantic Workflows. Gil, Y. In Proceedings of the IEEE Conference on Intelligence and Security Informatics (ISI), Seattle, WA, 2013.
Towards Task-Centered Network Models through Semantic Workflows [pdf]Paper   bibtex   8 downloads
An Initial Analysis of Semantic Wikis. Gil, Y.; Knight, A.; Zhang, K.; Zhang, L.; and Sethi, R. In Proceedings of the ACM International Conference on Intelligent User Interfaces (IUI), Santa Monica, CA, 2013.
An Initial Analysis of Semantic Wikis [pdf]Paper   bibtex   4 downloads
The AAAI Fall Symposium on "Discovery Informatics: The Role of AI Research in Innovating Scientific Processes. Gil, Y.; and Hirsh, H. AI Magazine, 34(1). 2013.
The AAAI Fall Symposium on "Discovery Informatics: The Role of AI Research in Innovating Scientific Processes [pdf]Paper   bibtex   2 downloads
A Primer for the PROV Provenance Model. Gil, Y.; Miles, S.; Belhajjame, K.; Deus, H.; Garijo, D.; Klyne, G.; Missier, P.; Soiland-Reyes, S.; and Zednik, S. 2013. World Wide Web Consortium (W3C)
A Primer for the PROV Provenance Model [link]Paper   bibtex
PROV-DM: The PROV Data Model. Moreau, L.; Missier, P.; Belhajjame, K.; B'Far, R.; Cheney, J.; Coppens, S.; Cresswell, S.; Gil, Y.; Groth, P.; Klyne, G.; Lebo, T.; McCusker, J.; Miles, S.; Myers, J.; Sahoo, S.; and Tilmes, C. 2013. World Wide Web Consortium (W3C)
PROV-DM: The PROV Data Model [link]Paper   bibtex
  2012 (14)
Scientific Workflows: The Key to Convergence?. McCann, M. P.; Hofmann, A. F.; Harmon, T. C.; and Gil, Y. 2012. Ocean Sciences Meeting, Salt Lake City, Utah
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Designing a Roadmap for Workflow Cyberinfrastructure in the Geosciences: From Big Data to the Long Tail. Gil, Y.; Deelman, E.; Demir, I.; Duffy, C.; Pierce, M.; Marru, S.; and Wiener, G. 2012. American Geophysical Union Fall Meeting, San Francisco, CA
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Using Semantic Workflows for Genome-Scale Analysis. Gil, Y.; Ratnakar, V.; Deelman, E.; and Mason, C. 2012. International Conference on Intelligent Systems for Molecular Biology (ISMB), Long Beach, CA
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Designing a Roadmap for Geoscience Workflows. Duffy, C.; Gil, Y.; Deelman, E.; Marru, S.; Pierce, M.; Demir, I.; and Wiener, G. Eos Transactions of the American Geophysical Union, 93(24). 2012.
Designing a Roadmap for Geoscience Workflows [link]Paper   bibtex   4 downloads
EarthCube Report on a Workflows Roadmap for the Geosciences. Deelman, E.; Duffy, C.; Gil, Y.; Marru, S.; Pierce, M.; and Wiener, G. 2012. National Science Foundation, Arlington, VA.
EarthCube Report on a Workflows Roadmap for the Geosciences [link]Paper   EarthCube Report on a Workflows Roadmap for the Geosciences [link]Link   bibtex   4 downloads
Final Report of the 2012 NSF Workshop on Discovery Informatics. Gil, Y.; and Hirsh, H. 2012. National Science Foundation, Arlington, VA.
Final Report of the 2012 NSF Workshop on Discovery Informatics [link]Paper   Final Report of the 2012 NSF Workshop on Discovery Informatics [link]Link   bibtex   2 downloads
Reusing Workflow Fragments Across Multiple Data Domains. Sethi, R. J.; Jo, H.; and Gil, Y. In Proceedings of the Seventh Workshop on Workflows in Support of Large-Scale Science (WORKS'12), held in conjunction with SC 2012, Salt Lake City, Utah, 2012.
Reusing Workflow Fragments Across Multiple Data Domains [pdf]Paper   bibtex   2 downloads
Augmenting PROV with Plans in P-PLAN: Scientific Processes as Linked Data. Garijo, D.; and Gil, Y. In Second International Workshop on Linked Science: Tackling Big Data (LISC), held in conjunction with the International Semantic Web Conference (ISWC), Boston, MA, 2012.
Augmenting PROV with Plans in P-PLAN: Scientific Processes as Linked Data [pdf]Paper   bibtex   1 download
Organic Data Sharing: A Novel Approach to Scientific Data Sharing. Gil, Y.; Ratnakar, V.; and Hanson, P. In Second International Workshop on Linked Science: Tackling Big Data (LISC), held in conjunction with the International Semantic Web Conference (ISWC), Boston, MA, 2012.
Organic Data Sharing: A Novel Approach to Scientific Data Sharing [pdf]Paper   bibtex   10 downloads
Discovery Informatics: AI Opportunities in Scientific Discovery. Gil, Y.; and Hirsh, H. In AAAI Fall Symposium on Discovery Informatics: The Role of AI Research in Innovating Scientific Processes, Arlington, Virginia, 2012.
Discovery Informatics: AI Opportunities in Scientific Discovery [pdf]Paper   bibtex   8 downloads
Common Motifs in Scientific Workflows: An Empirical Analysis. Garijo, D.; Alper, P.; Belhajjame, K.; Corcho, O.; Gil, Y.; and Goble, C. In Proceedings of the IEEE Conference on e-Science, Chicago, Illinois, 2012.
Common Motifs in Scientific Workflows: An Empirical Analysis [pdf]Paper   bibtex   2 downloads
Capturing Common Knowledge about Tasks: Intelligent Assistance for To Do Lists. Gil, Y.; Ratnakar, V.; Chklovski, T.; Groth, P.; and Vrandecic, D. ACM Transactions on Interactive Intelligent Systems, 2(3). 2012.
Capturing Common Knowledge about Tasks: Intelligent Assistance for To Do Lists [pdf]Paper   bibtex   6 downloads
Automatic Metadata Annotation through Reconstructing Provenance. Groth, P.; Gil, Y.; and Magliacane, S. In Proceedings of the Third International Workshop on the role of Semantic Web in Provenance Management (SWPM) , Heraklion, Greece, 2012.
Automatic Metadata Annotation through Reconstructing Provenance [pdf]Paper   bibtex   2 downloads
Requirements for Provenance on the Web. Groth, P.; Gil, Y.; Cheney, J.; and Miles, S. International Journal of Digital Curation, 7(1). 2012.
Requirements for Provenance on the Web [pdf]Paper   Requirements for Provenance on the Web [link]Link   bibtex   5 downloads
  2011 (20)
Final Report of the 2011 Workshop on Aquatic Ecosystem Sustainability (WAES). Gil, Y.; and Harmon, T. 2011. Technical Report ISI-TR-674, Information Sciences Institute, Marina del Rey, CA.
Final Report of the 2011 Workshop on Aquatic Ecosystem Sustainability (WAES) [link]Paper   Final Report of the 2011 Workshop on Aquatic Ecosystem Sustainability (WAES) [link]Link   bibtex
A Semantic Framework for Automatic Generation of Computational Workflows Using Distributed Data and Component Catalogs. Gil, Y.; Gonzalez-Calero, P. A.; Kim, J.; Moody, J.; and Ratnakar, V. Journal of Experimental and Theoretical Artificial Intelligence, 23(4). 2011.
A Semantic Framework for Automatic Generation of Computational Workflows Using Distributed Data and Component Catalogs [pdf]Paper   bibtex   6 downloads
Shortipedia: Aggregating and Curating Semantic Web Data. Vrandecic, D.; Ratnakar, V.; Kroetzsch, M.; and Gil, Y. Journal of Web Semantics, 9(3). 2011.
Shortipedia: Aggregating and Curating Semantic Web Data [pdf]Paper   bibtex
A New Approach for Publishing Workflows: Abstractions, Standards, and Linked Data. Garijo, D.; and Gil, Y. 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.
A New Approach for Publishing Workflows: Abstractions, Standards, and Linked Data [pdf]Paper   bibtex   2 downloads
Making Data Analysis Expertise Broadly Accessible through Workflows. Hauder, M.; Gil, Y.; Sethi, R.; Liu, Y.; and Jo, H. 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 [pdf]Paper   bibtex   9 downloads
Linked Data for Network Science. Groth, P.; and Gil, Y. In First International Workshop on Linked Science at the International Semantic Web Conference (ISWC), Bonn, Germany, 2011.
Linked Data for Network Science [pdf]Paper   bibtex   4 downloads
The Cognitive Atlas: Towards a knowledge foundation for cognitive neuroscience. Poldrack, R. A.; Kittur, A.; Kalar, D.; Miller, E.; Seppa, C.; Gil, Y.; Parker, D. S.; Sabb, F. W.; and Bilder, R. M. Frontiers in Neuroinformatics, 5(17). 2011.
The Cognitive Atlas: Towards a knowledge foundation for cognitive neuroscience [link]Link   bibtex
A Framework for Efficient Text Analytics through Automatic Configuration and Customization of Scientific Workflows. Hauder, M.; Gil, Y.; and Liu, Y. In Proceedings of the Seventh IEEE International Conference on e-Science, Stockholm, Sweden, 2011.
A Framework for Efficient Text Analytics through Automatic Configuration and Customization of Scientific Workflows [pdf]Paper   bibtex   6 downloads
Mind Your Metadata: Exploiting Semantics for Configuration, Adaptation, and Provenance in Scientific Workflows. Gil, Y.; Szekely, P.; Villamizar, S.; Harmon, T.; Ratnakar, V.; Gupta, S.; Muslea, M.; Silva, F.; and Knoblock, C. In Proceedings of the Tenth International Semantic Web Conference (ISWC), Bonn, Germany, 2011.
Mind Your Metadata: Exploiting Semantics for Configuration, Adaptation, and Provenance in Scientific Workflows [pdf]Paper   bibtex
Introduction to the Special Issue on Using Provenance in the Semantic Web. Gil, Y.; and Groth, P. Journal of Web Semantics, 9(2). 2011.
Introduction to the Special Issue on Using Provenance in the Semantic Web [link]Link   bibtex
Goal-Directed Meta-Control for Integrated Procedure Learning. Kim, J.; Myers, K.; Gervasio, M.; and Gil, Y. In Metareasoning: Thinking about Thinking. MIT Press, 2011.
Goal-Directed Meta-Control for Integrated Procedure Learning [link]Link   bibtex   buy
Retrieval of Semantic Workflows with Knowledge Intensive Similarity Metrics. Bergmann, R.; and Gil, Y. In Proceedings of the Nineteenth International Conference on Case Based Reasoning (ICCBR), Greenwich, London, 2011.
Retrieval of Semantic Workflows with Knowledge Intensive Similarity Metrics [pdf]Paper   bibtex
A Social Collaboration Argumentation System for Generating Multi-Faceted Answers in Question and Answer Communities. Sethi, R. J.; and Gil, Y. In Proceedings of the AAAI Workshop on Computational Models of Natural Argument, San Francisco, CA, 2011.
A Social Collaboration Argumentation System for Generating Multi-Faceted Answers in Question and Answer Communities [pdf]Paper   bibtex   2 downloads
LinkedDataLens: Linked Data as a Network of Networks. Groth, P.; and Gil, Y. In Proceedings of the ACM International Conference on Knowledge Capture (K-CAP), Banff, Alberta, Canada, 2011.
LinkedDataLens: Linked Data as a Network of Networks [pdf]Paper   bibtex   1 download
TellMe: Learning Procedures from Tutorial Instruction. Gil, Y.; Ratnakar, V.; and Fritz, C. In Proceedings of the ACM International Conference on Intelligent User Interfaces, Palo Alto, CA, 2011.
TellMe: Learning Procedures from Tutorial Instruction [pdf]Paper   bibtex   19 downloads
A Formal Framework for Combining Natural Instruction and Demonstration for End-User Programming. Fritz, C.; and Gil, Y. In Proceedings of the ACM International Conference on Intelligent User Interfaces, Palo Alto, CA, 2011.
A Formal Framework for Combining Natural Instruction and Demonstration for End-User Programming [pdf]Paper   bibtex   5 downloads
Want World Domination? Play Risk! Matching To-Do items with How-Tos from the Web. Vrandecic, D.; Gil, Y.; and Ratnakar, V. In Proceedings of the ACM International Conference on Intelligent User Interfaces, Palo Alto, CA, 2011.
Want World Domination? Play Risk! Matching To-Do items with How-Tos from the Web [pdf]Paper   bibtex   2 downloads
Interactive Knowledge Capture in the New Millenium: How the Semantic Web Changed Everything. Gil, Y. Knowledge Engineering Review, 26(1). 2011.
Interactive Knowledge Capture in the New Millenium: How the Semantic Web Changed Everything [pdf]Paper   bibtex   2 downloads
The Open Provenance Model Core Specification (v1.1). Moreau, L.; Clifford, B.; Freire, J.; Futrelle, J.; Gil, Y.; Groth, P.; Kwasnikowska, N.; Miles, S.; Missier, P.; Myers, J.; Plale, B.; Simmhan, Y.; Stephan, E.; and denBussche , J. V. Future Generation Computer Systems, 27(6). 2011.
The Open Provenance Model Core Specification (v1.1) [link]Link   The Open Provenance Model Core Specification (v1.1) [pdf]Paper   bibtex
Wings: Intelligent Workflow-Based Design of Computational Experiments. Gil, Y.; Ratnakar, V.; Kim, J.; Gonzalez-Calero, P. A.; Groth, P.; Moody, J.; and Deelman, E. IEEE Intelligent Systems, 26(1). 2011.
Wings: Intelligent Workflow-Based Design of Computational Experiments [pdf]Paper   bibtex   13 downloads
  2010 (9)
Final Report of the W3C Provenance Incubator Group. Gil, Y.; Cheney, J.; Groth, P.; Hartig, O.; Miles, S.; Moreau, L.; and daSilva , P. P. 2010. World Wide Web Consortium (W3C)
Final Report of the W3C Provenance Incubator Group [link]Paper   bibtex
Shortipedia: Aggregating and Curating Semantic Web Data. Vrandecic, D.; Ratnakar, V.; Kroetzsch, M.; and Gil, Y. In Semantic Web Challenge at the International Semantic Web Conference (ISWC), Shanghai, China, 2010.
Shortipedia: Aggregating and Curating Semantic Web Data [pdf]Paper   bibtex
Social Task Networks: Personal and Collaborative Task Formulation and Management in Social Networking Sites. Gil, Y.; Groth, P.; and Ratnakar, V. In Proceedings of the AAAI Fall Symposium on Proactive Assistant Agents , Arlington, VA, 2010.
Social Task Networks: Personal and Collaborative Task Formulation and Management in Social Networking Sites [pdf]Paper   bibtex   1 download
Assisting Scientists with Complex Data Analysis Tasks through Semantic Workflows. Gil, Y.; Ratnakar, V.; and Fritz, C. In Proceedings of the AAAI Fall Symposium on Proactive Assistant Agents , Arlington, VA, 2010.
Assisting Scientists with Complex Data Analysis Tasks through Semantic Workflows [pdf]Paper   bibtex
Towards the Integration of Programming by Demonstration and Programming by Instruction using Golog. Fritz, C.; and Gil, Y. In Proceedings of the AAAI Workshop on Plan, Activity, and Intent Recognition (PAIR), Atlanta, GA, 2010.
Towards the Integration of Programming by Demonstration and Programming by Instruction using Golog [pdf]Paper   bibtex   3 downloads
Provenance Requirements for the Next Version of RDF. Zhao, J.; Bizer, C.; Gil, Y.; Missier, P.; and Sahoo, S. 2010. W3C Workshop on RDF Next Steps
Provenance Requirements for the Next Version of RDF [pdf]Paper   bibtex
Parameterized Specification, Configuration, and Execution of Data-Intensive Scientific Workflows. Kumar, V.; Kurc, T.; Ratnakar, V.; Kim, J.; Mehta, G.; Vahi, K.; Nelson, Y. L.; Sadayappan, P.; Deelman, E.; Gil, Y.; Hall, M.; and Saltz, J. Cluster Computing Journal, 13(3): 315-333. 2010.
Parameterized Specification, Configuration, and Execution of Data-Intensive Scientific Workflows [link]Link   Parameterized Specification, Configuration, and Execution of Data-Intensive Scientific Workflows [pdf]Paper   bibtex
Principles for Interactive Acquisition and Validation of Workflows. Kim, J.; Gil, Y.; and Spraragen, M. Journal of Experimental and Theoretical Artificial Intelligence, 22(2): 103-134. 2010.
Principles for Interactive Acquisition and Validation of Workflows [link]Link   Principles for Interactive Acquisition and Validation of Workflows [pdf]Paper   bibtex   1 download
Reasoning about the Appropriate Use of Private Data through Computational Workflows. Gil, Y.; and Fritz, C. In Proceedings of the AAAI Spring Symposium on Privacy Management, Stanford, CA, 2010.
Reasoning about the Appropriate Use of Private Data through Computational Workflows [pdf]Paper   bibtex   8 downloads
  2009 (11)
High Performance Computing and Grid Computing for Integrative Biomedical Research. Kurç, T. M.; Hastings, S.; Kumar, V. S.; Langella, S.; Sharma, A.; Pan, T.; Oster, S.; Ervin, D.; Permar, J.; Narayanan, S.; Gil, Y.; Deelman, E.; Hall, M. W.; and Saltz, J. H. Journal of High Performance Computing Applications, 23(3): 252-264. 2009.
High Performance Computing and Grid Computing for Integrative Biomedical Research [link]Link   High Performance Computing and Grid Computing for Integrative Biomedical Research [pdf]Paper   bibtex
Expressive Reusable Workflow Templates. Gil, Y.; Groth, P.; Ratnakar, V.; and Fritz, C. In Proceedings of the Fifth IEEE International Conference on e-Science (e-Science), Oxford, UK, 2009.
Expressive Reusable Workflow Templates [pdf]Paper   bibtex   5 downloads
Determining the Trustworthiness of New Electronic Contracts. Groth, P. T.; Miles, S.; Modgil, S.; Oren, N.; Luck, M.; and Gil, Y. In Proceedings of the Tenth Annual Workshop on Engineering Societies in the Agents World (ESAW), pages 132-147, Utrecht, The Netherlands, 2009.
Determining the Trustworthiness of New Electronic Contracts [link]Link   Determining the Trustworthiness of New Electronic Contracts [pdf]Paper   bibtex   2 downloads
Workflow Matching using Semantic Metadata. Gil, Y.; Kim, J.; Puga, G. F.; Ratnakar, V.; and González-Calero, P. A. In Proceedings of the Fifth International Conference on Knowledge Capture (K-CAP), pages 121-128, Redondo Beach, CA, 2009.
Workflow Matching using Semantic Metadata [link]Link   Workflow Matching using Semantic Metadata [pdf]Paper   bibtex
Proceedings of the 5th International Conference on Knowledge Capture (K-CAP). Gil, Y.; and Noy, N. F. , editor s. Redondo Beach, CA, 2009.Association for Computing Machinery.
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Leveraging Social Networking Sites to Acquire Rich Task Structure. Gil, Y.; Groth, P.; and Ratnakar, V. In Proceedings of the IJCAI Workshop on User-Contributed Knowledge and Artificial Intelligence: An Evolving Synergy (WikiAI), held in conjunction with the Twenty-First International Joint Conference on Artificial Intelligence (IJCAI), Pasadena, CA, 2009.
Leveraging Social Networking Sites to Acquire Rich Task Structure [pdf]Paper   bibtex
Analyzing the Gap between Workflows and their Natural Language Descriptions. Groth, P. T.; and Gil, Y. In Proceedings of the IEEE International Workshop on Scientific Workflows (SWF), pages 299-305, Los Angeles, CA, 2009.
Analyzing the Gap between Workflows and their Natural Language Descriptions [link]Link   Analyzing the Gap between Workflows and their Natural Language Descriptions [pdf]Paper   bibtex   2 downloads
An Integrated Framework for Performance-Based Optimization of Scientific Workflows. Kumar, V. S.; Sadayappan, P.; Mehta, G.; Vahi, K.; Deelman, E.; Ratnakar, V.; Kim, J.; Gil, Y.; Hall, M. W.; Kurç, T. M.; and Saltz, J. H. In Proceedings of the Eighteenth ACM International Symposium on High Performance Distributed Computing (HPDC), pages 177-186, Garching, Germany, 2009.
An Integrated Framework for Performance-Based Optimization of Scientific Workflows [link]Link   An Integrated Framework for Performance-Based Optimization of Scientific Workflows [pdf]Paper   bibtex
From Data to Knowledge to Discoveries: Artificial Intelligence and Scientific Workflows. Gil, Y. Scientific Programming, 17(3): 231-246. 2009.
From Data to Knowledge to Discoveries: Artificial Intelligence and Scientific Workflows [link]Link   From Data to Knowledge to Discoveries: Artificial Intelligence and Scientific Workflows [pdf]Paper   bibtex   1 download
Scaffolding Instructions to Learn Procedures from Users. Groth, P.; and Gil, Y. In Proceedings of the AAAI Spring Symposium on Agents that Learn from Human Teachers, Stanford, CA, 2009.
Scaffolding Instructions to Learn Procedures from Users [pdf]Paper   bibtex
A Scientific Workflow Construction Command Line. Groth, P. T.; and Gil, Y. In Proceedings of the ACM International Conference on Intelligent User Interfaces (IUI), pages 445-450, Sanibel Island, FL, 2009.
A Scientific Workflow Construction Command Line [link]Link   A Scientific Workflow Construction Command Line [pdf]Paper   bibtex
  2008 (6)
Automating To-Do Lists for Users: Interpretation of To-Dos for Selecting and Tasking Agents. Gil, Y.; and Ratnakar, V. In Proceedings of the Twenty-Third Conference of the American Association for Artificial Intelligence (AAAI), pages 765-771, Chicago, IL, 2008.
Automating To-Do Lists for Users: Interpretation of To-Dos for Selecting and Tasking Agents [pdf]Paper   bibtex   3 downloads
Scientific Software as Workflows: From Discovery to Distribution. Woollard, D.; Medvidovic, N.; Gil, Y.; and Mattmann, C. IEEE Software, 25(4): 37-43. 2008.
Scientific Software as Workflows: From Discovery to Distribution [link]Link   Scientific Software as Workflows: From Discovery to Distribution [link]Paper   bibtex
Provenance Trails in the Wings/Pegasus Workflow System. Kim, J.; Deelman, E.; Gil, Y.; Mehta, G.; and Ratnakar, V. Concurrency and Computation: Practice and Experience, Special Issue on the First Provenance Challenge, 20(5). 2008.
Provenance Trails in the Wings/Pegasus Workflow System [pdf]Paper   bibtex
Designing and Parameterizing a Workflow for Optimization: A Case Study in Biomedical Imaging. Kumar, V. S.; Hall, M. W.; Kim, J.; Gil, Y.; Kurç, T. M.; Deelman, E.; Ratnakar, V.; and Saltz, J. H. In Proceedings of the Twentysecond IEEE International Symposium on Parallel and Distributed Processing (IPDPS), Miami, FL, 2008.
Designing and Parameterizing a Workflow for Optimization: A Case Study in Biomedical Imaging [link]Link   bibtex
Self-Configuring Applications for Heterogeneous Systems: Program Composition and Optimization Using Cognitive Techniques. Hall, M.; Gil, Y.; and Lucas, R. In Proceedings of the IEEE, Special Issue on Cutting-Edge Computing: Using New Commodity Architectures, volume 96, 2008.
Self-Configuring Applications for Heterogeneous Systems: Program Composition and Optimization Using Cognitive Techniques [pdf]Paper   bibtex   2 downloads
Towards Intelligent Assistance for To-Do Lists. Gil, Y.; and Ratnakar, V. In Proceedings of the ACM International Conference on Intelligent User Interfaces (IUI), pages 329-332, Gran Canaria, Canary Islands, Spain, 2008.
Towards Intelligent Assistance for To-Do Lists [link]Link   Towards Intelligent Assistance for To-Do Lists [pdf]Paper   bibtex
  2007 (10)
Examining the Challenges of Scientific Workflows. Gil, Y.; Deelman, E.; Ellisman, M. H.; Fahringer, T.; Fox, G.; Gannon, D.; Goble, C. A.; Livny, M.; Moreau, L.; and Myers, J. IEEE Computer, 40(12): 24-32. 2007.
Examining the Challenges of Scientific Workflows [link]Link   Examining the Challenges of Scientific Workflows [pdf]Paper   bibtex
Privacy Enforcement in Data Analysis Workflows. Gil, Y.; Cheung, W. K.; Ratnakar, V.; and Chan, K. In Proceedings of the AAAI Workshop on Privacy Enforcement and Accountability with Semantics (PEAS), held in conjunction with the Sixth International Semantic Web Conference (ISWC) and the Second Asian Semantic Web Conference (ASWC), Busan, Korea, 2007.
Privacy Enforcement in Data Analysis Workflows [pdf]Paper   bibtex   1 download
Incorporating tutoring principles into interactive knowledge acquisition. Kim, J.; and Gil, Y. International Journal of Human-Computer Studies, 65(10): 852-872. 2007.
Incorporating tutoring principles into interactive knowledge acquisition [link]Link   Incorporating tutoring principles into interactive knowledge acquisition [pdf]Paper   bibtex   1 download
A survey of trust in computer science and the Semantic Web. Artz, D.; and Gil, Y. Journal of Web Semantics, 5(2): 58-71. 2007.
A survey of trust in computer science and the Semantic Web [link]Link   A survey of trust in computer science and the Semantic Web [pdf]Paper   bibtex   4 downloads
Wings for Pegasus: Creating Large-Scale Scientific Applications Using Semantic Representations of Computational Workflows. Gil, Y.; Ratnakar, V.; Deelman, E.; Mehta, G.; and Kim, J. In Proceedings of the Twenty-Second National Conference on Artificial Intelligence (AAAI), pages 1767-1774, Vancouver, British Columbia, Canada, 2007.
Wings for Pegasus: Creating Large-Scale Scientific Applications Using Semantic Representations of Computational Workflows [pdf]Paper   bibtex
Towards Privacy Aware Data Analysis Workflows for e-Science. Cheung, W.; and Gil, Y. In Proceedings of the AAAI Workshop on Semantic e-Science (SeS2007), held in conjunction with the Twenty-Second Conference of the Association for the Advancement of Artificial Intelligence (AAAI), Vancouver, British Columbia, Canada, 2007.
Towards Privacy Aware Data Analysis Workflows for e-Science [pdf]Paper   bibtex
On the Black Art of Designing Computational Workflows. Gil, Y.; Gonzalez-Calero, P. A.; and Deelman, E. In Proceedings of the Second Workshop on Workflows in Support of Large-Scale Science (WORKS), held in conjunction with the IEEE International Symposium on High Performance Distributed Computing (HPDC), Monterrey, CA, 2007.
On the Black Art of Designing Computational Workflows [pdf]Paper   bibtex
Intelligent Optimization of Parallel and Distributed Applications. Bansal, B.; Çatalyürek, Ü. V.; Chame, J.; Chen, C.; Deelman, E.; Gil, Y.; Hall, M. W.; Kumar, V. S.; Kurç, T. M.; Lerman, K.; Nakano, A.; Nelson, Y. L.; Saltz, J. H.; Sharma, A.; and Vashishta, P. In Proceedings of the Twentyfirst International Parallel and Distributed Processing Symposium (IPDPS), Long Beach, CA, 2007.
Intelligent Optimization of Parallel and Distributed Applications [link]Link   bibtex
Enhancing Interaction with To-Do Lists Using Artificial Assistants. Gil, Y.; and Chklovski, T. In Proceedings of the AAAI Spring Symposium on Interaction Challenges for Artificial Assistants, Stanford, CA, 2007.
Enhancing Interaction with To-Do Lists Using Artificial Assistants [pdf]Paper   bibtex
Towards Content Trust of Web Resources. Gil, Y.; and Artz, D. Journal of Web Semantics, 5(4). 2007.
Towards Content Trust of Web Resources [link]Link   Towards Content Trust of Web Resources [pdf]Paper   bibtex   1 download
  2006 (9)
Final Report of the NSF Workshop on Challenges of Scientific Workflows. Deelman, E.; and (Co-Chairs), Y. G. 2006. National Science Foundation, also available from http://www.nsf.gov/od/oci/reports.jsp
Final Report of the NSF Workshop on Challenges of Scientific Workflows [link]Paper   Final Report of the NSF Workshop on Challenges of Scientific Workflows [link]Link   bibtex
Managing Large-Scale Scientific Workflows in Distributed Environments: Experiences and Challenges. Deelman, E.; and Gil, Y. In Proceedings of the Workshop on Scientific Workflows and Business Workflow Standards in e-Science of the Second International Conference on e-Science and Grid Technologies (e-Science), Amsterdam, The Netherlands, 2006.
Managing Large-Scale Scientific Workflows in Distributed Environments: Experiences and Challenges [link]Link   Managing Large-Scale Scientific Workflows in Distributed Environments: Experiences and Challenges [pdf]Paper   bibtex
Wings for Pegasus: A Semantic Approach to Creating Very Large Scientific Workflows. Gil, Y.; Kim, J.; Ratnakar, V.; and Deelman, E. In Proceedings of the 2006 Workshop on OWL: Experiences and Directions (OWL-ED), Athens, GA, 2006.
Wings for Pegasus: A Semantic Approach to Creating Very Large Scientific Workflows [pdf]Link   Wings for Pegasus: A Semantic Approach to Creating Very Large Scientific Workflows [pdf]Paper   bibtex
Semantic Metadata Generation for Large Scientific Workflows. Kim, J.; Gil, Y.; and Ratnakar, V. In Proceedings of the Fifth International Semantic Web Conference (ISWC), pages 357-370, Athens, GA, 2006.
Semantic Metadata Generation for Large Scientific Workflows [link]Link   Semantic Metadata Generation for Large Scientific Workflows [pdf]Paper   bibtex
Workflow Composition. Gil, Y. In Workflows for e-Science. Springer Verlag, 2006.
Workflow Composition [pdf]Paper   bibtex   buy   1 download
On Agents and Grids: Creating the Fabric of a New Generation of Distributed Intelligent Systems. Gil, Y. Journal of Web Semantics, 4(2). 2006.
On Agents and Grids: Creating the Fabric of a New Generation of Distributed Intelligent Systems [pdf]Paper   bibtex   1 download
Towards Content Trust of Web Resources. Gil, Y.; and Artz, D. In Proceedings of the Fifteenth International World Wide Web Conference (WWW), pages 565-574, Edinburgh, Scotland, UK, 2006.
Towards Content Trust of Web Resources [link]Link   Towards Content Trust of Web Resources [pdf]Paper   bibtex
Metadata Catalogs with Semantic Representations. Gil, Y.; Ratnakar, V.; and Deelman, E. In Proceedings of the International Provenance and Annotation Workshop (IPAW), pages 90-100, Chicago, IL, 2006.
Metadata Catalogs with Semantic Representations [link]Link   Metadata Catalogs with Semantic Representations [pdf]Paper   bibtex
Organizing Argumentation Statements to Support Intelligence Analysis. Chklovski, T.; Kim, J.; and Gil, Y. In Proceedings of the Workshop on Intelligent User Interfaces for Intelligence Analysis at the ACM International Conference on Intelligent User Interfaces, Sydney, Australia, 2006.
Organizing Argumentation Statements to Support Intelligence Analysis [pdf]Paper   bibtex   2 downloads
  2005 (9)
Virtual Metadata Catalogs: Augmenting Metadata Catalogs with Semantic Representations. Gil, Y.; Ratnakar, V.; and Deelman, E. In Proceedings of the Fourth International Semantic Web Conference (ISWC), Galway, Ireland, 2005.
Virtual Metadata Catalogs: Augmenting Metadata Catalogs with Semantic Representations [pdf]Paper   bibtex
Improving the design of intelligent acquisition interfaces for collecting world knowledge from web contributors. Chklovski, T.; and Gil, Y. In Proceedings of the Third International Conference on Knowledge Capture (K-CAP), pages 35-42, Banff, Alberta, Canada, 2005.
Improving the design of intelligent acquisition interfaces for collecting world knowledge from web contributors [link]Link   Improving the design of intelligent acquisition interfaces for collecting world knowledge from web contributors [pdf]Paper   bibtex
Simplifying Construction of Complex Workflows for Non-Expert Users of the Southern California Earthquake Center Community Modelling Environment. Maechling, P.; Chalupsky, H.; Dougherty, M.; Deelman, E.; Gil, Y.; Gullapalli, S.; Gupta, V.; Kesselman, C.; Kim, J.; Mehta, G.; Mendenhall, B.; Russ, T.; Singh, G.; Spraragen, M.; Staples, G.; and Vahi, K. ACM SIGMOD Record, Special Issue on Scientific Workflows, 34(3). 2005.
Simplifying Construction of Complex Workflows for Non-Expert Users of the Southern California Earthquake Center Community Modelling Environment [link]Paper   bibtex
Pegasus: A Framework for Mapping Complex Scientific Workflows onto Distributed Systems. Deelman, E.; Singh, G.; Su, M.; Blythe, J.; Gil, Y.; Kesselman, C.; Kim, J.; Mehta, G.; Vahi, K.; Berriman, G. B.; Good, J.; Laity, A.; Jacob, J. C.; and Katz, D. S. Scientific Programming, 13(3). 2005.
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An Analysis of Knowledge Collected from Volunteer Contributors. Chklovski, T.; and Gil, Y. In Proceedings of the Twentieth National Conference on Artificial Intelligence (AAAI), pages 564-571, Pittsburgh, PA, 2005.
An Analysis of Knowledge Collected from Volunteer Contributors [pdf]Paper   bibtex
Description Logics and Planning. Gil, Y. AI Magazine, 26(2): 73-84. 2005.
Description Logics and Planning [pdf]Paper   bibtex   1 download
Task scheduling strategies for workflow-based applications in grids. Blythe, J.; Jain, S.; Deelman, E.; Gil, Y.; Vahi, K.; Mandal, A.; and Kennedy, K. In Proceedings of the Fifth International Symposium on Cluster Computing and the Grid (CCGrid), pages 759-767, Cardiff, UK, 2005.
Task scheduling strategies for workflow-based applications in grids [link]Link   bibtex
Towards Managing Knowledge Collection from Volunteer Contributors. Chklovski, T.; and Gil, Y. In Proceedings of the AAAI Spring Symposium on Knowledge Collection from Volunteer Contributors (KCVC), Stanford, CA, 2005.
Towards Managing Knowledge Collection from Volunteer Contributors [pdf]Paper   bibtex
User interfaces with semi-formal representations: a study of designing argumentation structures. Chklovski, T.; Ratnakar, V.; and Gil, Y. In Proceedings of the ACM International Conference on Intelligent User Interfaces (IUI), pages 130-136, San Diego, CA, 2005.
User interfaces with semi-formal representations: a study of designing argumentation structures [link]Link   User interfaces with semi-formal representations: a study of designing argumentation structures [pdf]Paper   bibtex   1 download
  2004 (8)
A short study on the success of the Gene Ontology. Bada, M.; Stevens, R.; Goble, C. A.; Gil, Y.; Ashburner, M.; Blake, J. A.; Cherry, J. M.; Harris, M. A.; and Lewis, S. Journal of Web Semantics, 1(2): 235-240. 2004.
A short study on the success of the Gene Ontology [link]Paper   A short study on the success of the Gene Ontology [link]Link   bibtex
Pegasus: Mapping Scientific Workflows onto the Grid. Deelman, E.; Blythe, J.; Gil, Y.; Kesselman, C.; Mehta, G.; Patil, S.; Su, M.; Vahi, K.; and Livny, M. In Proceedings of the Second European Across Grids Conference (AxGrids), pages 11-20, Nicosia, Cyprus, 2004.
Pegasus: Mapping Scientific Workflows onto the Grid [link]Link   bibtex
Automatically Composed Workflows for Grid Environments. Blythe, J.; Deelman, E.; and Gil, Y. IEEE Intelligent Systems, 19(4): 16-23. 2004.
Automatically Composed Workflows for Grid Environments [link]Link   bibtex
Artemis: Integrating Scientific Data on the Grid. Tuchinda, R.; Thakkar, S.; Gil, Y.; and Deelman, E. In Proceedings of the Sixteenth Conference on Innovative Applications of Artificial Intelligence (IAAI), pages 892-899, San Jose, CA, 2004.
Artemis: Integrating Scientific Data on the Grid [pdf]Paper   bibtex
Incremental formalization of document annotations through ontology-based paraphrasing. Blythe, J.; and Gil, Y. In Proceedings of the 13th International World Wide Web Conference (WWW), pages 455-461, New York, NY, 2004.
Incremental formalization of document annotations through ontology-based paraphrasing [link]Link   Incremental formalization of document annotations through ontology-based paraphrasing [pdf]Paper   bibtex   1 download
Guest Editor's Introduction to the Special Issue on e-Science. DeRoure, D.; Gil, Y.; and (Eds), J. H. IEEE Intelligent Systems, . 2004.
Guest Editor's Introduction to the Special Issue on e-Science [link]Paper   bibtex
Artificial Intelligence and Grids: Workflow Planning and Beyond. Gil, Y.; Deelman, E.; Blythe, J.; Kesselman, C.; and Tangmunarunkit, H. IEEE Intelligent Systems, 19(1): 26-33. 2004.
Artificial Intelligence and Grids: Workflow Planning and Beyond [link]Link   Artificial Intelligence and Grids: Workflow Planning and Beyond [pdf]Paper   bibtex
An intelligent assistant for interactive workflow composition. Kim, J.; Spraragen, M.; and Gil, Y. In Proceedings of the ACM International Conference on Intelligent User Interfaces, pages 125-131, Funchal, Madeira, Portugal, 2004.
An intelligent assistant for interactive workflow composition [link]Link   An intelligent assistant for interactive workflow composition [pdf]Paper   bibtex   1 download
  2003 (8)
Pegasus and the Pulsar Search: From Metadata to Execution on the Grid. Deelman, E.; Blythe, J.; Gil, Y.; Kesselman, C.; Koranda, S.; Lazzarini, A.; Mehta, G.; Papa, M. A.; and Vahi, K. In Applications Grid Workshop at the Fifth International Conference on Parallel Processing and Applied Mathematics (PPAM), pages 821-830, Czestochowa, Poland, 2003.
Pegasus and the Pulsar Search: From Metadata to Execution on the Grid [link]Link   bibtex
TRELLIS: Supporting Decision Making via Argumentation in the Semantic Web. Chklovski, T.; Gil, Y.; Ratnakar, V.; and Lee, J. In Proceedings of Second International Semantic Web Conference (ISWC), Sanibel Island, FL, 2003.
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Workflow Management in GriPhyN. Deelman, E.; Blythe, J.; Gil, Y.; and Kesselman, C. In Grid Resource Management. Kluwer, 2003.
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Mapping Abstract Workflows onto Grid Environments. Deelman, E.; Blythe, J.; Gil, Y.; Kesselman, C.; Mehta, G.; Vahi, K.; Blackburn, K.; Lazzarini, A.; Arbree, A.; Cavanaugh, R.; and Koranda, S. Journal of Grid Computing, 1(1). 2003.
Mapping Abstract Workflows onto Grid Environments [pdf]Paper   bibtex
Transparent Grid Computing: A Knowledge-Based Approach. Blythe, J.; Deelman, E.; Gil, Y.; and Kesselman, C. In Proceedings of the Fifteenth Conference on Innovative Applications of Artificial Intelligence (IAAI), pages 57-64, Acapulco, Mexico, 2003.
Transparent Grid Computing: A Knowledge-Based Approach [pdf]Paper   bibtex
Proactive Acquisition from Tutoring and Learning Principles. Kim, J.; and Gil, Y. In Proceedings of the Eleventh International Conference on Artificial Intelligence in Education (AI-ED), Sydney, Australia, 2003.
Proactive Acquisition from Tutoring and Learning Principles [pdf]Paper   bibtex
The Role of Planning in Grid Computing. Blythe, J.; Deelman, E.; Gil, Y.; Kesselman, C.; Agarwal, A.; Mehta, G.; and Vahi, K. In Proceedings of the Thirteenth International Conference on Automated Planning and Scheduling (ICAPS), pages 153-163, Trento, Italy, 2003.
The Role of Planning in Grid Computing [pdf]Paper   bibtex   2 downloads
Knowledge Mobility: Semantics for the Web as a White Knight for Knowledge-Based Systems. Gil, Y. In Spinning the Semantic Web: Bringing the World Wide Web to Its Full Potential, pages 253-278. MIT Press, 2003.
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  2002 (7)
IKRAFT: Interactive Knowledge Representation and Acquisition from Text. Gil, Y.; and Ratnakar, V. In Proceedings of the Thirteenth International Conference on Knowledge Engineering and Knowledge Management (EKAW), pages 27-36, Siguenza, Spain, 2002.
IKRAFT: Interactive Knowledge Representation and Acquisition from Text [link]Link   IKRAFT: Interactive Knowledge Representation and Acquisition from Text [pdf]Paper   bibtex   1 download
TRELLIS: An Interactive Tool for Capturing Information Analysis and Decision Making. Gil, Y.; and Ratnakar, V. In Proceedings of the Thirteenth International Conference on Knowledge Engineering and Knowledge Management (EKAW), pages 37-42, Siguenza, Spain, 2002.
TRELLIS: An Interactive Tool for Capturing Information Analysis and Decision Making [link]Link   TRELLIS: An Interactive Tool for Capturing Information Analysis and Decision Making [pdf]Paper   bibtex   1 download
Interactive Knowledge Acquisition Tools: A Tutoring Perspective. Gil, Y.; and Kim, J. In Proceedings of the 24th Annual Meeting of the Cognitive Science Society (CogSci), Fairfax, VA, August 8-10, 2002.
Interactive Knowledge Acquisition Tools: A Tutoring Perspective [pdf]Paper   bibtex
Agent Technology to Support Human Organizations. Chalupsky, H.; Gil, Y.; Knoblock, C.; Lerman, K.; Oh, J.; Pynadath, D.; Russ, T.; and Tambe, M. AI Magazine, 23(2). 2002.
Agent Technology to Support Human Organizations [pdf]Paper   bibtex   1 download
Trusting Information Sources One Citizen at a Time. Gil, Y.; and Ratnakar, V. In Proceedings of the First Semantic Web Conference (ISWC), pages 162-176, Sardinia, Italy, 2002.
Trusting Information Sources One Citizen at a Time [link]Link   Trusting Information Sources One Citizen at a Time [pdf]Paper   bibtex
Deriving Acquisition Principles from Tutoring Principles. Kim, J.; and Gil, Y. In Proceedings of the International Conference on Intelligent Tutoring Systems (ITS), pages 661-670, Biarritz, France and San Sebastian, Spain, 2002.
Deriving Acquisition Principles from Tutoring Principles [link]Link   Deriving Acquisition Principles from Tutoring Principles [pdf]Paper   bibtex
A Comparison of (Semantic) Markup Languages. Gil, Y.; and Ratnakar, V. In Proceedings of the Fifteenth International Florida Artificial Intelligence Research Society Conference (FLAIRS), pages 413-418, Pensacola Beach, FL, 2002.
A Comparison of (Semantic) Markup Languages [link]Paper   bibtex
  2001 (6)
User Studies of Knowledge Acquisition Tools: Methodology and Lessons Learned. Tallis, M.; Kim, J.; and Gil, Y. Journal of Experimental and Theoretical Artificial Intelligence, 13: 359-378. 2001.
User Studies of Knowledge Acquisition Tools: Methodology and Lessons Learned [pdf]Paper   bibtex
Knowledge Entry as Graphical Assembly of Components. Clark, P.; Thompson, J.; Barker, K.; Porter, B.; Chaudhi, V.; Rodriguez, A.; Thomere, J.; Mishra, S.; Gil, Y.; Hayes, P.; and Reichherzer, T. In Proceedings of the First International Conference on Knowledge Capture (K-CAP), Victoria, British Columbia, 2001.
Knowledge Entry as Graphical Assembly of Components [pdf]Paper   bibtex
Knowledge Analysis on Process Models. Kim, J.; and Gil, Y. In Proceedings of the Seventeenth International Joint Conference on Artificial Intelligence (IJCAI), pages 935-942, Seattle, WA, 2001.
Knowledge Analysis on Process Models [link]Paper   bibtex
Electric Elves: Applying Agent Technology to Support Human Organizations. Chalupsky, H.; Gil, Y.; Knoblock, C. A.; Lerman, K.; Oh, J.; Pynadath, D. V.; Russ, T. A.; and Tambe, M. In Proceedings of the Thirteenth Innovative Applications of Artificial Intelligence Conference (IAAI), pages 51-58, Seattle, WA, 2001.
Electric Elves: Applying Agent Technology to Support Human Organizations [pdf]Paper   bibtex
PHOSPHORUS: a task-based agent matchmaker. Gil, Y.; and Ramachandran, S. In Proceedings of the Fifth International Conference on Autonomous Agents, pages 110-111, Montreal, Canada, 2001.
PHOSPHORUS: a task-based agent matchmaker [link]Link   PHOSPHORUS: a task-based agent matchmaker [pdf]Paper   bibtex
An integrated environment for knowledge acquisition. Blythe, J.; Kim, J.; Ramachandran, S.; and Gil, Y. In Proceedings of the ACM International Conference on Intelligent User Interfaces (IUI), pages 13-20, 2001.
An integrated environment for knowledge acquisition [link]Link   An integrated environment for knowledge acquisition [pdf]Paper   bibtex
  2000 (4)
Acquiring Problem-Solving Knowledge from End Users: Putting Interdependency Models to the Test. Kim, J.; and Gil, Y. In Proceedings of the Seventeenth National Conference on Artificial Intelligence (AAAI), pages 223-229, Austin, TX, 2000.
Acquiring Problem-Solving Knowledge from End Users: Putting Interdependency Models to the Test [pdf]Paper   bibtex
PLANET: A Shareable and Reusable Ontology for Representing Plans. Gil, Y.; and Blythe, J. In AAAI Workshop on Representational Issues for Real-World Planning Systems, Austin, TX, 2000.
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How Can a Structured Representation of Capabilities Help in Planning?. Gil, Y.; and Blythe, J. In AAAI 2000 Workshop on Representational Issues for Real-world Planning Systems, Austin, TX, 2000.
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User studies of an interdependency-based interface for acquiring problem-solving knowledge. Kim, J.; and Gil, Y. In IUI, pages 165-168, 2000.
User studies of an interdependency-based interface for acquiring problem-solving knowledge [link]Link   bibtex
  1999 (3)
Deriving Expectations to Guide Knowledge Base Creation. Kim, J.; and Gil, Y. In Proceedings of the Sixteenth National Conference on Artificial Intelligence (AAAI), pages 235-241, Orlando, FL, 1999.
Deriving Expectations to Guide Knowledge Base Creation [pdf]Paper   bibtex
Designing Scripts to Guide Users in Modifying Knowledge-based Systems. Tallis, M.; and Gil, Y. In Proceedings of the Sixteenth National Conference on Artificial Intelligence (AAAI), pages 242-249, Orlando, FL, 1999.
Designing Scripts to Guide Users in Modifying Knowledge-based Systems [pdf]Paper   bibtex
On the Role of Humans in Enterprise Control Systems: the Experience of INSPECT. Valente, A.; Blythe, J.; Gil, Y.; and Swartout, W. In First DARPA-JFACC Symposium on Advances in Enterprise Control. San Diego, CA, 1999.
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  1997 (1)
A Script-Based Approach to Modifying Knowledge Bases. Gil, Y.; and Tallis, M. In Proceedings of the Fourteenth National Conference on Artificial Intelligence (AAAI), pages 377-383, Providence, RI, 1997.
A Script-Based Approach to Modifying Knowledge Bases [pdf]Paper   bibtex
  1996 (4)
Explicit Representations of Problem-Solving Strategies to Support Knowledge Acquisition. Gil, Y.; and Melz, E. In Proceedings of the Thirteenth National Conference on Artificial Intelligence (AAAI), pages 469-476, Portland, OR, 1996.
Explicit Representations of Problem-Solving Strategies to Support Knowledge Acquisition [pdf]Paper   bibtex   1 download
Planning Experiments: Resolving Interactions between Two Planning Spaces. Gil, Y. In Proceedings of the Third International Conference on Artificial Intelligence Planning Systems (AIPS), pages 102-109, Edinburgh, Scotland, 1996.
Planning Experiments: Resolving Interactions between Two Planning Spaces [pdf]Paper   bibtex   1 download
Subsumption-Based Matching: Bringing Semantics to Goals. Gil, Y.; and González, P. A. In Proceedings of the International Workshop on Description Logics (DL), pages 116-118, Cambridge, MA, 1996.
Subsumption-Based Matching: Bringing Semantics to Goals [pdf]Paper   bibtex   1 download
EXPECT: A User-Centered Environment for the Development and Adaptation of Knowledge-Based Planning Aids. Gil, Y.; and Swartout, W. In Advanced Planning Technology: Technological Achievements of the ARPA/Rome Laboratory Planning Initiative, Austin Tate (Ed). AAAI Press, Menlo Park, CA, 1996.
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  1995 (1)
Planning and Learning in Prodigy: Overview of an Integrated Architecture. Carbonell, J.; Etzioni, O.; Gil, Y.; Joseph, R.; Knoblock, C.; Minton, S.; and Veloso, M. In Ram, A.; and Leake, D. B., editor(s), Goal-Driven Learning, 11, pages 297--306. MIT Press, Cambridge, MA, 1995.
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  1994 (3)
Towards Method-Independent Knowledge Acquisition. Paris, C.; and Gil, Y. Knowledge Acquisition, 6(2). 1994.
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Knowledge Refinement in a Reflective Architecture. Gil, Y. In Proceedings of the Twelfth National Conference on Artificial Intelligence (AAAI), pages 520-526, 1994.
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Learning by Experimentation: Incremental Refinement of Incomplete Planning Domains. Gil, Y. In Proceedings of the Eleventh International Machine Learning Conference (ICML), pages 87-95, Rutgers, NJ, 1994.
Learning by Experimentation: Incremental Refinement of Incomplete Planning Domains [pdf]Paper   bibtex   2 downloads
  1993 (1)
Efficient Domain-Independent Experimentation. Gil, Y. In Proceedings of the Tenth International Machine Learning Conference (ICML), pages 128-134, Amherst, MA, 1993.
Efficient Domain-Independent Experimentation [pdf]Paper   bibtex   3 downloads
  1991 (2)
PRODIGY: An Integrated Architecture for Planning and Learning. Carbonell, J. G.; Etzioni, O.; Gil, Y.; Joseph, R.; Knoblock, C. A.; Minton, S.; and Veloso, M. M. SIGART Bulletin, 2(4): 51-55. 1991.
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A Domain-Independent Framework for Effective Experimentation in Planning. Gil, Y. In Proceedings of the Eight International Conference on Machine Learning (ICML), pages 13-17, Evanston, IL, 1991.
A Domain-Independent Framework for Effective Experimentation in Planning [pdf]Paper   bibtex
  1990 (1)
Learning by Experimentation: The Operator Refinement Method. Gil, Y.; and Carbonell, J. In Machine Learning: An Artificial Intelligence Approach, Volume III, Michalski, R. S. and Kodratoff, Y. (Eds.). Morgan Kaufmann, San Mateo, CA, 1990.
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  1989 (1)
Explanation-Based Learning: A Problem-Solving Perspective. Minton, S.; Carbonell, J. G.; Knoblock, C.; Kuokka, D. R.; Etzioni, O.; and Gil, Y. Artificial Intelligence, 40(1/3): 63-118. 1989.
Explanation-Based Learning: A Problem-Solving Perspective [link]Paper   bibtex   2 downloads