Publications

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2011

Scalable Query Rewriting: A Graph-Based ApproachGeorge Konstantinidis, José Luis Ambite
In ACM SIGMOD Conference
2011BibTex

The next {PAGE} in understanding complex traits: study design for analysis of Population Architecture using Genetics and EpidemiologyTara C. Matise, José Luis Ambite, Steven Buyske, Steven, Chris S. Carlson, Shelley A. Cole, Dana C. Crawford, Chris A. Haiman, Gerardo Heiss, Charles Kooperberg, Loic Le Marchand, Teri A. Manolio, Kari E. North, Ulrike Peters, Marylyn D. Ritchie, Lucia A. Hindorff, Jonathan L. Haines
In American Journal of Epidemiology
2011, 849-859 pagesBibTex

Mapping Phenotype Variables to Support Cross-study Data Integration Among Genomic StudiesC.-N. Hsu, C.-J. Kuo, C. Cai, S. A. Pendergrass, T. C. Matise, M. D. Ritchie, Ambite, JL
In 12th International Congress of Human Genetics
2011BibTex

Use and performance of the Metabochip Genotyping Array in African Americans: the {PAGE} StudyS. Buyske, Y. Wu, Ambite, JL, T. Assimes, E. Boerwinkle, C. Carty, I. Cheng, B. Cochran, D. Duggan, L. Dumitrescu, M. Fesinmeyer, C. A. Haiman, J. Haessler, L. Hindorff, H. M. Kang, C. Kooperberg, Y. Lin, L. Le Marchand, T. Matise, S. Mitchell, K. Mohlke, U. Peters, F. Schumacher, B. F. Voight, D. Crawford, K. North
In 12th International Congress of Human Genetics
2011BibTex

Enabling Collaborative Research Using the Biomedical Informatics Research Network ({BIRN})Karl G. Helmer, José Luis Ambite, Joseph Ames, Rachana Ananthakrishnan, Gully Burns, Ann L. Chervenak, Ian Foster, Lee Liming, David Keator, Fabio Macciardi, Ravi Madduri, John-Paul Navarro, Steven Potkin, Bruce Rosen, Seth Ruffins, Robert Schuler, Jessica A. Turner, Arthur Toga, Christina Williams, Carl Kesselman {for the Biomedical Informatics Research Network}
In Journal of the American Medical Informatics Association
2011, 416–422 pages
http://jamia.bmj.com/content/18/4/416.abstractBibTex

Interactively Mapping Data Sources into the Semantic WebKnoblock, Craig A., Pedro Szekely, José Luis Ambite, Shubham Gupta, Aman Goel, Maria Muslea, Lerman, Kristina, Parag Mallick
In Proceedings of the First International Workshop on Linked Science 2011 in Conjunction with the 10th International Semantic Web Conference
2011BibTex

Aligning Unions of Concepts in Ontologies of Geospatial Linked DataRahul Parundekar, Jose Luis Ambite, Knoblock, Craig A.
In Proceedings of the Terra Cognita 2011 Workshop in Conjunction with the 10th International Semantic Web Conference
2011BibTex

2010

Phenotype-Wide Association Study (PheWAS) for Detection of Pleiotropy within the Multi-Ethnic Studies of the Population Architecture Using Genomics and Epidemiology (PAGE) Network (abstract)S. Pendergrass, K. Brown-Gentry, S. Dudek, Ambite, JL, C. L. Avery, S. Buyske, C. Cai, G. Heiss, L. Hindorff, C. Kooperberg, Y. Lin, T. A. Manolio, T. Matise, L. Wilkens, M. D. Fesinmeyer, C.-N. Hsu, D. C. Crawford, M. D. Ritchie
In 60th Annual Meeting of the American Society of Human Genetics (ASHG)
2010BibTex

Improving Access to Clinical and Genetic Data on Mental Disorders (abstract)José Luis Ambite, Shefali Sharma, Hsu, Chun-Nan, Yigal Arens
In 60th Annual Meeting of the American Society of Human Genetics (ASHG)
2010BibTex

An Integrated Data Explorer for Genomic Studies on Mental DisordersJosé Luis Ambite, Shefali Sharma, Hsu, Chun-Nan, Yigal Arens
In 18th International Conference on Intelligent Systems for Molecular Biology (ISMB
2010BibTex

Linking the Deep Web to the Linked Data WebRahul Parundekar, Knoblock, Craig A., José Luis Ambite
In Proceedings of the AAAI Spring Symposium on Linked Data Meets Artificial Intelligence
2010BibTex

Aligning Geospatial Ontologies on the Linked Data WebRahul Parundekar, Knoblock, Craig A., José Luis Ambite
In Proceedings of the GIScience Workshop on Linked Spatiotemporal Data
2010BibTex

Linking and Building Ontologies of Linked DataRahul Parundekar, Knoblock, Craig A., José Luis Ambite
In Proceedings of the 9th International Semantic Web Conference (ISWC 2010)
2010BibTex

Neuroscience Data Integration through Mediation: An {(F)BIRN} Case StudyNaveen Ashish, José Luis Ambite, Maria Muslea, Jessica Turner
In Frontiers in Neuroinformatics
2010BibTex

Population Architecture using Genomics and Epidemiology (PAGE) – from SNPs to GWAS and BeyondDana C. Crawford, Gerardo Heiss, Charles Kooperberg, Loic Le Marchand, Tara C. Matise, José Luis Ambite, Steven Buyske, Shelley A. Cole, Chris A. Haiman, Teri A. Manolio, Kari E. North, Ulrike Peters, Marylyn D. Ritchie, Lucia A. Hindorff, Jonathan L. Haines
In 138th American Public Health Association Annual Meeting
2010BibTex

2009

Interactive Data Integration through Smart Copy {&} PasteZachary G. Ives, Knoblock, Craig A., Minton, Steven, Marie Jacob, Partha Pratim Talukdar, Rattapoom Tuchinda, José Luis Ambite, Maria Muslea, Gazen, Cenk
In Fourth Biennial Conference on Innovative Data Systems Research (CIDR)
2009BibTex

Discovering and Learning Semantic Models of Online Sources for Information IntegrationJosé Luis Ambite, Gazen, Cenk, Knoblock, Craig A., Lerman, Kristina, Russ, Thomas
In Proceedings of the IJCAI Workshop on Information Integration on the Web (IIWeb)
2009BibTex

Automatically constructing semantic web services from online sourcesJosé Luis Ambite, Sirish Darbha, Aman Goel, Knoblock, Craig A., Lerman, Kristina, Rahul Parundekar, Russ, Thomas
In Proceedings of the 8th International Semantic Web Conference (ISWC 2009)
2009BibTex

A new {PAGE} in understanding complex traits: study design for analysis of Population Architecture using Genomics and Epidemiology (abstract 1781)T. C. Matise, Ambite, JL, S. A. Cole, D. C. Crawford, C. A. Haiman, C. Kooperberg, L. Le Marchand, T. A. Manolio, K. E. North, U. Peters, M. D. Ritchie, L. A. Hindorff, J. L. Haines, {for PAGE}
In 59th Annual Meeting of The American Society of Human Genetics
2009BibTex

2008

Beyond the Elves: Making Intelligent Agents IntelligentKnoblock, Craig A., José Luis Ambite, Mark Carman andMatthew Michelson, Pedro Szekely, Rattapoom Tuchinda
In AI Magazine
2008BibTex

Argos: Automatic Generation of Data Processing Workflows in e-GovernmentJosé Luis Ambite
In Invited Presentation at The Global E-Government Research and Practice Symposium
2008BibTex

Exploiting Data Semantics to Discover, Extract, and Model Web SourcesJosé Luis Ambite, Knoblock, Craig A., Lerman, Kristina, Plangprasopchok, Anon, Russ, Thomas, Gazen, Cenk, Minton, Steven, Carman, Mark
In First International Workshop on Semantic Aspects in Data Mining
2008BibTex

2007

Automatic Generation of Data Processing Workflows for Transportation ModelingJosé Luis Ambite, Dipsy Kapoor
In Proceedings of the 8th Annual International Conference on Digital Government Research (dg.o2007)
2007BibTex

ARGOS: Dynamic Composition of Web Services for Goods Movement Analysis and Planning (Project Highlights 2007)José Luis Ambite, Genevieve Giuliano, Peter Gordon
In Proceedings of the 8th Annual International Conference on Digital Government Research (dg.o2007)
2007BibTex

Argos: A Framework for Automatically Generating Data Processing WorkflowsJosé Luis Ambite, Dipsy Kapoor
In Proceedings of the 8th Annual International Conference on Digital Government Research (dg.o2007)
2007BibTex

Quality-Driven Geospatial Data IntegrationSnehal Thakkar, Knoblock, Craig A., José Luis Ambite
In Proceedings of the 15th ACM International Symposium on Advances in Geographic Information Systems (ACM GIS 2007)
2007BibTex

Automatically Composing Data Workflows with Relational Descriptions and Shim ServicesJosé Luis Ambite, Dipsy Kapoor
In Proceedings of the 6th International Semantic Web Conference
2007BibTex

{EntityBases}: Compiling, Organizing and Querying Massive Entity RepositoriesKnoblock, Craig A., José Luis Ambite, Kavita Ganesan, Maria Muslea, Minton, Steven, Greg Barish, Evan Gamble, Claude Nanjo, KaneSee, Cyrus Shahabi, and Ching-Chien Chen
In International Conference on Artificial Intelligence (ICAI'07)
2007BibTex

2006

Design and Implementation of the CALO Query ManagerJosé Luis Ambite, Vinay K. Chaudhri, Richard Fikes, Jessica Jenkins, Sunil Mishra, Maria Muslea, Tomas Uribe, Guizhen Yang
In The Eighteenth Conference on Innovative Applications of Artificial Intelligence (IAAI)
2006BibTex

Data Processing Workflows in the Social Sciences: Representation and Automatic GenerationJosé Luis Ambite, Dipsy Kapoor, Mountu Jinwala
In Proceedings of the 7th Annual National Conference on Digital Government Research (dg.o2006)
2006BibTex

Argos: Dynamic Composition of Web Services for Goods Movement Analysis and PlanningJosé Luis Ambite, Genevieve Giuliano, Peter Gordon, Qisheng Pan, Mountu Jinwala, Dipsy Kapoor, LanLan Wang
In Proceedings of the 7th Annual National Conference on Digital Government Research (dg.o2006)
2006BibTex

2005

Plan Optimization by Plan RewritingJosé Luis Ambite, Knoblock, Craig A., Steve Minton
In Intelligent Techniques for Planning
2005BibTex

Conditional Constraint Networks for Interleaved Planning and Information GatheringJosé Luis Ambite, Knoblock, Craig A., Maria Muslea, Minton, Steven
In IEEE Intelligent Systems
2005BibTex

Automatic Composition of Aggregation Workflows for Transportation ModelingJosé Luis Ambite, Matthew Weathers
In Proceedings of the 6th Annual National Conference on Digital Government Research (dg.o2005)
2005BibTex

Composing, Optimizing, and Executing Plans for Bioinformatics Web ServicesSnehal Thakkar, José Luis Ambite, Knoblock, Craig A.
In The VLDB Journal, The International Journal on Very Large Data Bases
2005, 330–353 pagesBibTex

TRIPLE - an RDF Rule Language with Context and Use CasesStefan Decker, Michael Sintek, Andreas Billig, Nicola Henze, Peter Dolog, Wolfgang Nejdl, Andreas Harth, Andreas Leicher, Susanne Busse, Jörn Guy Süß, Zoltán Miklós, José Luis Ambite, Matthew Weathers, Gustaf Neumann, Uwe Zdun
In W3C Workshop on Rule Languages for Interoperability
2005BibTex

Integration of Heterogeneous Knowledge Sources in the CALO Query ManagerJosé Luis Ambite, Vinay K. Chaudhri, Richard Fikes, Jessica Jenkins, Sunil Mishra, Maria Muslea, Tomas Uribe, Guizhen Yang
In The 4th International Conference on Ontologies, DataBases, and Applications of Semantics (ODBASE)
2005BibTex

2004

Retrieving and Semantically Integrating Heterogeneous Data from the WebMartin Michalowski, José Luis Ambite, Knoblock, Craig A., Steve Minton, Snehal Thakkar, Rattapoom Tuchinda
In IEEE Intelligent Systems
2004BibTex

Argos: Dynamic Composition of Web Services for Goods Movement Analysis and PlanningJosé Luis Ambite, Genevieve Giuliano, Peter Gordon, Andreas Harth, LanLan Wang, Qisheng Pan, Stefan Decker
In Proceedings of the 5th Annual National Conference on Digital Government Research (dg.o2004)
2004BibTex

Argos: An Ontology and Web Service Composition Infrastructure for Goods Movement AnalysisJosé Luis Ambite, Genevieve Giuliano, Peter Gordon, Andreas Harth, Karanbir Jassar, Qisheng Pan, LanLan Wang
In Proceedings of the 5th Annual National Conference on Digital Government Research (dg.o2004)
2004BibTex

A Data Integration Approach to Automatically Composing and Optimizing Web ServicesSnehal Thakkar, José Luis Ambite, Knoblock, Craig A.
In Proceedings of 2004 ICAPS Workshop on Planning and Scheduling for Web and Grid Services
2004BibTex

2003

Proteus: A System for Dynamically Composing and Intelligently Executing Web ServicesShahram Ghandeharizadeh, Knoblock, Craig A., Christos Papadopoulos, Cyrus Shahabi, Esam Alwagait, José Luis Ambite, Min Cai, Ching-Chien Chen, Parikshit Pol, Rolfe Schmidt, Saihong Song, Snehal Thakkar, Runfang Zhou
In Proceedings of the First International Conference on Web Services (ICWS-2003)
2003BibTex

A View Integration Approach to Dynamic Composition of Web ServicesSnehal Thakkar, Craig Knoblock, José Luis Ambite
In Workshop on Planning for Web Services, The 13th International Conference on Automated Planning & Scheduling (ICAPS 2003)
2003BibTex

2002

Data Integration and Access: The Digital Government Research Center's Energy Data Collection {(EDC)} ProjectJosé Luis Ambite, Yigal Arens, Walter Bourne, Steve Feiner, Luis Gravano, Vasileios Hatzivassiloglou, Hovy, Eduard, Judith Klavans, Andrew Philpot, Usha Ramachandran, Kenneth Ross, Jay Sandhaus, Deniz Sarioz, Rolfe R. Schmidt, Cyrus Shahabi, Anurag Singla, Surabhan Temiyabutr, Brian Whitman
In Advances in Digital Government: Technology, Human Factors, and Policy
2002BibTex

Dynamically Composing Web Services from On-line SourcesSnehal Thakkar, Knoblock, Craig A., José Luis Ambite, Cyrus Shahabi
In Proceedings of the Workshop on Intelligent Service Integration, Eighteenth National Conference on Artificial Intelligence (AAAI-2002)
2002BibTex

Integrating Heterogeneous Sources for Better Freight Flow Analysis and PlanningJosé Luis Ambite, Genevieve Giuliano, Peter Gordon, Qisheng Pan, Sandipan Bhattacharjee
In Proceedings of the Second National Conference on Digital Government Research (dg.o 2002)
2002BibTex

{DGRC AskCal}: Natural Language Question Answering for Energy Time SeriesAndrew Philpot, José Luis Ambite, Hovy, Eduard
In Proceedings of the Second National Conference on Digital Government Research (dg.o 2002)
2002BibTex

A Portal for Access to Complex Distributed Information about EnergyJosé Luis Ambite, Yigal Arens, Walter Bourne, Peter T. Davis, Steven Feiner, Eduard H. Hovy, Judith L. Klavans, Andrew Philpot, Samuel Popper, Ken Ross, Ju-Ling Shih, Peter Sommer, Surabhan (Nick) Temiyabutr, Laura Zadoff
In Proceedings of the Second National Conference on Digital Government Research (dg.o 2002)
2002BibTex

Getting from Here to There: Interactive Planning and Agent Execution for Optimizing TravelJosé Luis Ambite, Greg Barish, Knoblock, Craig A., Maria Muslea, Jean Oh, Minton, Steven
In Proceedings of the Fourteenth Innovative Applications of Artificial Intelligence Conference (IAAI-2002)
2002, 862–869 pagesBibTex

Dynamically Composing Web Services from On-line SourcesSnehal Thakkar, Knoblock, Craig A., José Luis Ambite, Cyrus Shahabi
In Workshop on Intelligent Service Integration, The Eighteenth National Conference on Artificial Intelligence (AAAI-2002)
2002BibTex

2001

Compiling Source Descriptions for Efficient and Flexible Information IntegrationJosé Luis Ambite, Knoblock, Craig A., Ion Muslea, Andrew Philpot
In Journal of Intelligent Information Systems
2001, 149–187 pagesBibTex

Simplifying Data Access: The Energy Data Collection {(EDC)} ProjectJosé Luis Ambite, Yigal Arens, Hovy, Eduard, Andrew Philpot, Luis Gravano, Vasileios Hatzivassiloglou, Judith Klavans
In {IEEE} Computer, Special Issue on Digital Government
2001BibTex

Fast Approximate Evaluation of {OLAP} Queries for Integrated Statistical DataJosé Luis Ambite, Cyrus Shahabi, Rolfe R. Schmidt, Andrew Philpot
In Proceedings of the First National Conference for Digital Government Research
2001BibTex

Scalable Access and Integration of Statistical Data for Digital GovernmentJosé Luis Ambite, Yigal Arens, Hovy, Eduard, Judith Klavans, Andrew Philpot
In Proceedings of the Armed Forces Communications and Electronics Association {(AFCEA)} Federal Database Colloquium
2001BibTex

The WorldInfo Assistant: Spatio-Temporal Information Integration on the WebJosé Luis Ambite, Knoblock, Craig A., Mohammad R. Kolahdouzan, Maria Muslea, Cyrus Shahabi, Snehal Thakkar
In Proceedings of The Twenty Seventh International Conference on Very Large Data Bases (VLDB2001)
2001BibTex

Planning by {Rewriting}José Luis Ambite, Craig A. Knoblock
In Journal of Artificial Intelligence Research
2001, 207–261 pagesBibTex

Data Acquisition and Integration in the {DGRC's} Energy Data Collection ProjectHovy, Eduard, Andrew Philpot, José Luis Ambite, Yigal Arens, Judith Klavans, Walter Bourne, Deniz Saroz
In Proceedings of the First National Conference for Digital Government Research
2001BibTex

The {Ariadne} approach to web-based information integrationKnoblock, Craig A., Minton, Steven, José Luis Ambite, Naveen Ashish, Ion Muslea, Andrew G. Philpot, Sheila Tejada
In International Journal of Cooperative Information Systems (IJCIS) Special Issue on Intelligent Information Agents: {T}heory and Applications
2001, 145–169 pagesBibTex

Mixed-Initiative, Multi-source Information AssistantsKnoblock, Craig A., Steve Minton, José Luis Ambite, Maria Muslea, Jean Oh, Martin Frank
In Proceedings of the Tenth International World Wide Web Conference
2001BibTex

Integrating the World: {The WorldInfo} AssistantKnoblock, Craig A., José Luis Ambite, Minton, Steven, Cyrus Shahabi, Mohammad Kolahdouzan, Maria Muslea, Jean Oh, Snehal Thakkar
In International Conference on Artificial Intelligence
2001BibTex

Efficiently Querying Moving Objects with Pre-defined Paths in a Distributed EnvironmentCyrus Shahabi, Mohammad R. Kolahdouzan, Snehal Thakkar, José Luis Ambite, Knoblock, Craig A.
In Proceedings of the Ninth ACM International Symposium on Advances in Geographic Information Systems
2001BibTex

2000

Flexible and Scalable Cost-Based Query Planning in Mediators: {A} Transformational ApproachJosé Luis Ambite, Knoblock, Craig A.
In Artificial Intelligence
2000, 115–161 pagesBibTex

Learning Plan Rewriting RulesJosé Luis Ambite, Knoblock, Craig A., Minton, Steven
In {P}roceedings of the Fifth International Conference on Artificial Intelligence Planning and Scheduling
2000BibTex

1998

Modeling Web Sources for Information IntegrationKnoblock, Craig A., Minton, Steven, José Luis Ambite, Naveen Ashish, Pragnesh Jay Modi, Ion Muslea, Andrew G. Philpot, Sheila Tejada
In Proceedings of the Fifteenth National Conference on Artificial Intelligence
1998, 211-218 pagesBibTex

Flexible and Scalable Query Planning in Distributed and Heterogeneous EnvironmentsJosé Luis Ambite, Knoblock, Craig A.
In {P}roceedings of the Fourth International Conference on Artificial Intelligence Planning Systems
1998BibTex

ARIADNE: A System for Constructing Mediators for Internet SourcesJosé Luis Ambite, Naveen Ashish, Knoblock, Craig A., Minton, Steven, Pragnesh J. Modi, Ion Muslea, Andrew Philpot, Sheila Tejada
In Proceedings of the ACM SIGMOD International Conference on Management of Data
1998BibTex

Planning by RewritingJosé Luis Ambite
1998BibTex

1997

Planning by Rewriting: {E}fficiently Generating High-Quality PlansJosé Luis Ambite, Knoblock, Craig A.
In Proceedings of the Fourteenth National Conference on Artificial Intelligence
1997, 706–713 pagesBibTex

Agents for Information GatheringJosé Luis Ambite, Knoblock, Craig A.
In IEEE Expert: Intelligent Systems and their Applications
1997BibTex

Flexible and Scalable Query Access Planning using an {AI} PlannerJosé Luis Ambite, Knoblock, Craig A.
In Proceedings of the IEEE Knowledge and Data Engineering Exchange Workshop
1997BibTex

The {SIMS} Manual: {V}ersion 2.0José Luis Ambite, Yigal Arens, Naveen Ashish, Knoblock, Craig A., Minton, Steven, Jay Modi, Maria Muslea, Andrew Philpot, Wei-Min Shen, Sheila Tejada, Weixiong Zhang
1997BibTex

Agents for Information GatheringKnoblock, Craig A., José Luis Ambite
In Software Agents
1997BibTex

1996

Efficient Planning by Graph RewritingJosé Luis Ambite, Knoblock, Craig A.
In Proceedings of the Thirteenth National Conference on Artificial Intelligence
1996BibTex

1995

The {SIMS} Manual: {V}ersion 1.0José Luis Ambite, Yigal Arens, Naveen Ashish, Chin Y. Chee, Hsu, Chun-Nan, Knoblock, Craig A., Wei-Min Shen, Sheila Tejada
1995BibTex

Reconciling Distributed Information SourcesJosé Luis Ambite, Knoblock, Craig A.
In Working Notes of the {AAAI} Spring Symposium on Information Gathering in Heterogeneous, Distributed Environments
1995BibTex

1994

Reconciling Agent ModelsJosé Luis Ambite, Craig Knoblock
In Proceedings of the Workshop on Intelligent Information Agents of the Third International Conference on Information And Knowledge Management
1994BibTex

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