José Luis Ambite
USC/Information Sciences Institute
4676 Admiralty Way, Suite 1001
Marina del Rey, CA 90292
Summary
ambite@isi.edu
(310) 448-8472
http://www.isi.edu/∼ambite
My core expertise is on information integration, including query rewriting under
constrains, learning schema mappings, and entity linkage. I have research interests
in databases, knowledge representation, semantic search, semantic web, scientific
workflows, and biomedical informatics.
I have worked on a variety of application domains ranging from e-government
to intelligence gathering, to mission planning, to transportation engineering, to
geospatial data integration, under funding from DARPA, NSF, and other agencies.
In the last years, my research focus has been on biomedical/genetic data within
several large NIH-funded projects.
Education
University of Southern California
Ph.D. in Computer Science, 1998.
Thesis: “Planning by Rewriting”. Advisor: Craig A. Knoblock.
University of Southern California
M.S. in Computer Science, 1992.
Technical University of Madrid (UPM/ETSIT)
M.S. in Electrical Engineering, 1990.
Thesis: “An Architecture for Distributed Expert Systems” (Honors).
Experience
University of Southern California
Computer Science Department
Research Assistant Professor, 2007 – Present.
University of Southern California
Information Sciences Institute
Project Leader, July 2009 – Present
Senior Research Scientist, 2002 – 2009.
Research Associate, 1999 – 2001.
Graduate Research Assistant, 1992 – 1998.
University of Southern California / Columbia University
Digital Government Research Center
Senior Research Scientist, 2002 – Present.
Research Associate, 1999 - 2001.
Universidad Autonoma de Madrid
Knowledge Engineering Institute
Knowledge Engineer, 1991.
Honors
Top 10 best paper in American Journal of Epidemiology in 2013.
Best Research Paper Award, International Semantic Web Conference, 2012
Best Paper Award, International Conference on Digital Government Research, 2007
Fulbright/Ministry of Education and Science of Spain Scholarship (1991-1995).
Funding
L2 K 2 R2 : Learn to Read to Know, Know to Learn to Read (PI: Marcu)
DARPA Information Innovation Office
2014-08-01 to 2018-01-31; Total: $2,800,000, JLA: $350,000
Role: co-Investigator
SchizConnect: Large-Scale Schizophrenia Neuroimaging Data Mediation and Federation (PI: Wang)
NIH National Institute of Mental Health
2013-03-19 to 2017-01-31; Total: $2,068,380, JLA:$736,382
Role: co-Principal Investigator
NHGRI Population Architecture Using Genomics and Epidemiology (PAGE), Coordinating Center (PI: Matise)
NIH National Human Genome Research Institute
2013-09-01 to 2017-05-31; Total: $3,600,000, JLA: $780,000
Role: co-Investigator
The Center for Genomic Studies of Mental Disorders (PI: Tischfield, ISI PI: Arens)
NIH National Institute of Mental Health
2013-06-01 to 2018-05-31; Total: $45,000,000, ISI: $4,053,735, JLA: $1,812,410
Role: co-Investigator
PhenoExplorer (aka Information Explorer: a suite of tools for cross-study genetic
loci discover UH3) (PI: Arens)
NIH National Heart, Lung and Blood Institute
2013-11-01 to 2015-06-30; Total: $500,000, JLA: $427,564
Role: co-Investigator
Information Explorer: a suite of tools for cross-study genetic loci discover (PI:
Arens)
NIH National Heart, Lung and Blood Institute
2011-07-01 to 2013-05-31; Total: $887,762, JLA: $736,382
Role: co-Investigator
Building Linked Open Services from Online Sources (PI: Knoblock)
National Science Foundation
2011-10-01 to 2014-09-30; $500,000
Role: co-Principal Investigator
BioInformatics Research Network Coordinating Center (PI: Kesselman)
NIH National Center for Research Resources
2009-05-01 to 2015-09-30; Total: $21,224,119, JLA: $1,100,000
Role: co-Investigator
NHGRI Population Architecture using Genomics and Epidemiology (PAGE)
Coordinating Center (aka NHGRI EpiGenVar Coordinating Center) (PI: Matise)
NIH National Human Genome Research Institute
2008-07-01 to 2013-06-30; Total: $4,675,000, JLA: $1,100,000
Role: co-Principal Investigator
PAGE-CC Supplement (PI: Matise)
NIH National Human Genome Research Institute
2009-10-01 to 2011-08-31; Total: $208,208, JLA: $103,561
Role: co-Principal Investigator
PAGE Metabochip Pilot (PI: Matise)
NIH National Human Genome Research Institute
2009-10-01 to 2011-08-31; $50,000
Role: co-Principal Investigator
Los Angeles Basin Clinical and Translational Science Institute (LAB-CTSI)
Center for Biomedical Informatics Sciences (CBIS) (PI: Kesselman)
NIH National Center for Research Resources
2010-07-01 to 2015-03-31; Total: $56,802,215
Role: Senior Personnel
Trend Analysis and Data Mining for Finding Suspicious Entities (PI: Knoblock)
Air Force Research Laboratory
2008-09-01 to 2010-08-31; $120,000
Role: Senior Personnel
The Center for Genomic Studies of Mental Disorders (PI: Tischfield, ISI PI: Arens)
NIH National Institute of Mental Health
2013-06-01 to 2018-05-31; Total: $57,000,000, ISI: $4,053,735, JLA: $1,800,000
Role: co-Investigator
Center for Health Informatics (PI: Kesselman)
Philantropic donation
Established 2008-09
Role: co-Investigator
A Freight Analysis and Planning Model (PI: Giuliano)
US Department of Transportation, California Department of Transportation
2008-09-08 to 2009-09-07; $314,835
Role: co-Principal Investigator
ARGOS: Dynamic Composition of Web Services for Goods Movement Analysis
and Planning (PI: Giuliano)
National Science Foundation/CISE/EIA/Digital Government Program
2003-08-01 to 2007-07-31; $1,050,000
Role: co-Principal Investigator
Better Freight Flow Data for Analysis and Planning
National Science Foundation/CISE/EIA/Digital Government Program,
Small Grant for Exploratory Research
2001-12-01 to 2002-11-30; $99,530
Role: co-Principal Investigator
Professional
Activities
Proposal and Site Reviewer:
Site Review Panel Member, National Science Foundation (NSF);
Proposal Review Panel Member, NSF, Directorate for Computer and Information
Science and Engineering;
Proposal Reviewer, National Institutes of Health (NIH);
Proposal Reviewer, National Aeronautics and Space Administration (NASA), Research in Intelligent Systems;
Proposal Reviewer, Austrian Science Fund (FWF).
Chair:
International Conference on Data Integration in the Life Sciences (DILS 2015),
Program Committee Chair;
Extended Semantic Web Conference (ESWC-2013), Chair services, processes and
cloud computing track;
International Conference on Automated Planning & Scheduling (ICAPS-2004),
Workshop on Planning and Scheduling for Web and Grid Services;
International Conference on Automated Planning & Scheduling (ICAPS-2003),
Workshop on Planning for Web Services;
Senior Program Committee Member:
International Joint Conference on Artificial Intelligence (IJCAI-2011, 2009);
National Conference on Artificial Intelligence (AAAI-2011)
Program Committee Member:
International Conference on Very Large Data Bases (VLDB-2014, 2013, 2012);
AAAI Fall Symposium on Discovery Informatics (DIS-2013);
First Workshop on Expanding the Boundaries of Health Informatics Using Artificial Intelligence (HIAI-2013);
ESWC Workshop on Services and Applications over Linked APIs and Data (SALAD2013);
International Conference on the Semantic Web (ISWC-2012, 2008–2004);
Extended Semantic Web Conference (ESWC-2014-2011);
International Conference on Digital Government Research (dg.o2012–2005, 2001);
Genome Informatics Workshop (GIW 2012);
SIGMOD 2012 Workshop on Information Integration on the Web (IIWeb-2012);
ESWC 2012 workshop on Linked APIs for the Semantic Web (LAPIS-2012);
Fifth International Workshop on REsource Discovery (RED-2012);
ISWC 2011 International Workshop on Consuming Linked Data (COLD 2011);
International World Wide Web Conference (WWW-2010);
National Conference on Artificial Intelligence (AAAI-2010, 2008, 2007, 2006);
Conference on Technologies and Applications of Artificial Intelligence (TAAI-2010),
Taiwanese Association for Artificial Intelligence;
International Conference on Automated Planning & Scheduling (ICAPS-2009, 2007,
2006, 2005, 2004, 2003);
Conferencia de la Asociación Española para la Inteligencia Artificial (CAEPIA2009, 2007, 2003, 2001);
International Conference on Service Oriented Computing (ICSOC-2006, 2005);
International World Wide Web Conference (WWW2008), International Workshop
on Context-enabled Source and Service Selection, Integration and Adaptation
(CSSSIA08);
International Workshop on AI for Service Composition (in conjunction with the
European Conference on Artificial Intelligence, ECAI 2006);
National Conference on Artificial Intelligence (AAAI-2005), Workshop on Planning
and Scheduling for Web Services, Grid and Autonomic Computing;
International Conference on Autonomous Agents and Multi-Agent Systems (AAMAS 2004);
First Annual International Conference on Mobile and Ubiquitous Systems (MobiQuitous 2004);
International Conference on Very Large Data Bases (VLDB-2004), Workshop on
Information Integration on the Web;
Florida Artificial Intelligence Research Symposium (FLAIRS-2004), track on Machine Learning for Planning;
International Conference on the Semantic Web (ISWC-2003), Workshop on Practical and Scalable Semantic Systems;
European Conference on Planning (ECP-2001), Workshop on Automated Planning
and Scheduling Technologies in New Methods of Electronic,Mobile and Collaborative Work;
International Conference on Artificial Intelligence Planning and Scheduling Sysytems
(AIPS-2000);
European Conference on Artificial Intelligence (ECAI-2000), Workshop on Local
Search for Planning & Scheduling;
Journal Reviewer:
Artificial Intelligence Journal;
ACM Transactions on Database Systems;
IEEE Transactions on Knowledge and Data Engineering;
Journal of Artificial Intelligence Research;
Communications of the ACM;
PLoS ONE;
Information Systems;
Constraints;
Computational Intelligence;
International Journal of Cooperative Information Systems;
Journal of Web Semantics;
Knowledge and Information Systems;
ACM Transactions on Internet Technology;
International Journal on Artificial Intelligence Tools;
IEEE Transactions on Systems, Man, and Cybernetics, Part A;
International Journal of Electronic Government Research;
Transactions in GIS;
IEEE Intelligent Systems;
Artificial Intelligence for Engineering Design, Analysis and Manufacturing;
AI Magazine;
IEEE Internet Computing
Conference Reviewer:
International Joint Conference on Artificial Intelligence (IJCAI-2013);
International Conference on Very Large Data Bases (VLDB 2008), International
Workshop on New Trends in Information Integration (NTII 2008);
International Conference on E-Government (EGOV-2005);
National Conference on Digital Government Research (dg.o2004, dg.o2002);
International Joint Conference on Artificial Intelligence (IJCAI-2003, 2001, 1999);
First International Conference on Service Oriented Computing (ICSOC-2003);
AAAI/SIGART Doctoral Consortium 2002, reviewer and panelist;
International Conference on Intelligent User Interfaces (IUI-2002);
International Conference on Autonomous Agents (Agents-2000, 1998);
International Conference on Artificial Inteligence Planning and Scheduling Systems
(AIPS-1998);
International Conference on Cooperative Information Systems (CoopIS-1995);
International Conference on Information and Knowledge Management (CIKM1995).
Other Reviewing:
Wiley, Encyclopedia of Computer Science & Engineering;
AMIS volume, Electronic Government: Information, Technology, and Transformation.
Teaching
University of Southern California, Computer Science
CSCI 599 Foundations of Databases, Knowledge Representation, Data Integration
and Data Exchange
Fall 2013: Jose Luis Ambite, George Konstantinidis
CSCI 548 Information Integration on the Web
Spring 2015: Jose Luis Ambite, Craig Knoblock
Spring 2014: Jose Luis Ambite, Pedro Szekely
Spring 2013: Jose Luis Ambite, Pedro Szekely
Spring 2012: Craig Knoblock, Pedro Szekely, Jose Luis Ambite
Spring 2011: Kristina Lerman, Jose Luis Ambite
CS 541, Artificial Intelligence Planning
Fall 2003: Jim Blythe, Jose Luis Ambite and Yolanda Gil
Universidad Politecnica de Madrid, Computer Science
Information Integration
Summer 2013, 1 week (15 hour) course in Master in Artificial Intelligence
Publications
Journal
Articles
[1] Jonathan M Kocarnik, S Lani Park, Jiali Han, Logan Dumitrescu, Iona
Cheng, Lynne R Wilkens, Fredrick R Schumacher, Laurence Kolonel, Chris S
Carlson, Dana C Crawford, Robert J Goodloe, Holli H Dilks, Paxton Baker,
Danielle Richardson, Tara C Matise, Jos Luis Ambite, Fengju Song, Abrar A
Qureshi, Mingfeng Zhang, David Duggan, Carolyn Hutter, Lucia Hindorff,
William S Bush, Charles Kooperberg, Loic Le Marchand, and Ulrike Peters.
Pleiotropic and sex-specific effects of cancer gwas snps on melanoma risk in
the population architecture using genomics and epidemiology (page) study.
PLOS One, 2015. Accepted.
[2] JM Kocarnik, SA Pendergrass, CL Carty, JS Pankow, FR Schumacher,
I Cheng, P Durda, JL Ambite, E Deelman, NR Cook, S Liu, J WactawskiWende, C Hutter, K Brown-Gentry, S Wilson, LG Best, N Pankratz,
CP Hong, SA Cole, VS Voruganti, P B?kova, NW Jorgensen, NS Jenny,
LR Wilkens, CA Haiman, LN Kolonel, A Lacroix, K North, R Jackson, L Le
Marchand, LA Hindorff, DC Crawford, M Gross, and U Peters. Multiancestral analysis of inflammation-related genetic variants and c-reactive protein
in the population architecture using genomics and epidemiology study. Circulation: Cardiovascular Genetics, 7:178–188, 2014. doi: 10.1161/CIRCGENETICS.113.000173.
[3] Jonathan M Kocarnik, S Lani Park, Jiali Han, Logan Dumitrescu, Iona
Cheng, Lynne R Wilkens, Fredrick R Schumacher, Laurence Kolonel,
Chris S Carlson, Dana C Crawford, Robert J Goodloe, Holli Dilks, Paxton Baker, Danielle Richardson, Jose Luis Ambite, Fengju Song, Abrar A
Quresh, Mingfeng Zhang, David Duggan, Carolyn Hutter, Lucia A Hindorff,
William S Bush, Charles Kooperberg, Loic Le Marchand, and Ulrike Peters. Replication of Associations Between GWAS SNPs and Melanoma Risk
in the Population Architecture Using Genomics and Epidemiology (PAGE)
Study. Journal of Investigative Dermatology, 134(7):2049–52, 2014. doi:
10.1038/jid.2014.53.
[4] Megan Fesinmeyer, James Meigs, Kari North, Fredrick Schumacher, Petra Buzkova, Nora Franceschini, Jeffrey Haessler, Robert Goodloe, Kylee
Spencer, Venkata Voruganti, Barbara Howard, Rebecca Jackson, Laurence
Kolonel, Simin Liu, JoAnn Manson, Kristine Monroe, Kenneth Mukamal,
Holli Dilks, Sarah Pendergrass, Andrew Nato, Peggy Wan, Lynne Wilkens,
Loic Marchand, Jose Luis Ambite, Steven Buyske, Jose Florez, Dana Crawford, Lucia Hindorff, Christopher Haiman, Ulrike Peters, and James Pankow.
Genetic variants associated with fasting glucose and insulin concentrations
in an ethnically diverse population: results from the population architecture using genomics and epidemiology (page) study. BMC Medical Genetics,
14(1):98, 2013.
[5] Iona Cheng, Jonathan M Kocarnik, Logan Dumitrescu, Noralane M Lindor, Jenny Chang-Claude, Christy L Avery, Christian P Caberto, ShellyAnn Love, Martha L Slattery, Andrew T Chan, John A Baron, Lucia A
Hindorff, Sungshim Lani Park, Fredrick R Schumacher, Michael Hoffmeister, Peter Kraft, Anne M Butler, David J Duggan, Lifang Hou, Chris S
Carlson, Kristine R Monroe, Yi Lin, Cara L Carty, Sue Mann, Jing Ma,
Edward L Giovannucci, Charles S Fuchs, Polly A Newcomb, Mark A Jenkins, John L Hopper, Robert W Haile, David V Conti, Peter T Campbell,
John D Potter, Bette J Caan, Robert E Schoen, Richard B Hayes, Stephen J
Chanock, Sonja I Berndt, Sebastien Kry, Stephane Bzieau, Jose Luis Ambite, Gowri Kumaraguruparan, Danielle M Richardson, Robert J Goodloe, Holli H Dilks, Paxton Baker, Brent W Zanke, Mathieu Lemire, Steven
Gallinger, Li Hsu, Shuo Jiao, Tabitha A Harrison, Daniela Seminara, Christopher A Haiman, Charles Kooperberg, Lynne R Wilkens, Carolyn M Hutter,
Emily White, Dana C Crawford, Gerardo Heiss, Thomas J Hudson, Hermann
Brenner, William S Bush, Graham Casey, Loc Le Marchand, and Ulrike Peters. Pleiotropic effects of genetic risk variants for other cancers on colorectal
cancer risk: PAGE, GECCO and CCFR consortia. Gut, 2013.
[6] Kira Taylor, Cara Carty, Logan Dumitrescu, Petra Buzkova, Shelley Cole,
Lucia Hindorff, Fred Schumacher, Lynne Wilkens, Ralph Shohet, P Quibrera,
Karen Johnson, Brian Henderson, Jeff Haessler, Nora Franceschini, Charles
Eaton, David Duggan, Barbara Cochran, Iona Cheng, Chris Carlson, Kristin
Brown-Gentry, Garnet Anderson, Jose Luis Ambite, Christopher Haiman,
Loic Le Marchand, Charles Kooperberg, Dana Crawford, Steven Buyske,
Kari North, Myriam Fornage, and for the PAGE Study. Investigation of
gene-by-sex interactions for lipid traits in diverse populations from the population architecture using genomics and epidemiology study. BMC Genetics,
14(1):33, 2013.
[7] Sungshim Lani Park, Iona Cheng, Sarah A. Pendergrass, Anna M.
Kucharska-Newton, Unhee Lim, Jose Luis Ambite, Christian P. Caberto,
Kristine R. Monroe, Fredrick Schumacher, Lucia A. Hindorff, Matthew T.
Oetjens, Sarah Wilson, Robert J. Goodloe, Shelly-Ann Love, Brian E. Henderson, Laurence N. Kolonel, Christopher A. Haiman, Dana C. Crawford,
Kari E. North, Gerardo Heiss, Marylyn D. Ritchie, Lynne R. Wilkens, and
Loc Le Marchand. Association of the FTO obesity risk variant rs8050136
with percentage of energy intake from fat in multiple racial/ethnic populations: The page study. American Journal of Epidemiology, 178(5):780–790,
2013. Top 10 best paper in AJE in 2013.
[8] Logan Dumitrescu, Cara L. Carty, Nora Franceschini, Lucia A. Hindorff,
Shelley A. Cole, Petra Bkov, Fredrick R. Schumacher, Charles B. Eaton,
Robert J. Goodloe, David J. Duggan, Jeff Haessler, Barbara Cochran,
Brian E. Henderson, Iona Cheng, Karen C. Johnson, Chris S. Carlson, ShellyAnn Love, Kristin Brown-Gentry, Alejandro Q. Nato, Miguel Quibrera, Garnet Anderson, Ralph V. Shohet, Jos Luis Ambite, Lynne R. Wilkens, Loc Le
Marchand, Christopher A. Haiman, Steven Buyske, Charles Kooperberg,
Kari E. North, Myriam Fornage, and Dana C. Crawford. Post-genome-wide
association study challenges for lipid traits: Describing age as a modifier
of gene-lipid associations in the population architecture using genomics and
epidemiology PAGE study. Annals of Human Genetics, 77(5):416–425, 2013.
[9] Logan Dumitrescu, CaraL. Carty, Nora Franceschini, LuciaA. Hindorff,
ShelleyA. Cole, Petra BBuzkova, FredrickR. Schumacher, CharlesB. Eaton,
RobertJ. Goodloe, DavidJ. Duggan, Jeff Haessler, Barbara Cochran, BrianE.
[10]
[11]
[12]
[13]
[14]
Henderson, Iona Cheng, KarenC. Johnson, ChrisS. Carlson, Shelly-Anne
Love, Kristin Brown-Gentry, AlejandroQ. Nato, Miguel Quibrera, RalphV.
Shohet, Jose Luis Ambite, LynneR. Wilkens, Loc Marchand, ChristopherA.
Haiman, Steven Buyske, Charles Kooperberg, KariE. North, Myriam Fornage, and DanaC. Crawford. No evidence of interaction between known
lipid-associated genetic variants and smoking in the multi-ethnic page population. Human Genetics, 132(12):1427–1431, 2013.
Sarah A. Pendergrass, Kristin Brown-Gentry, Scott Dudek, Alex Frase,
Eric S. Torstenson, Robert Goodloe, Jose Luis Ambite, Christy L. Avery,
Steve Buyske, Petra Buzkova, Ewa Deelman, Megan D. Fesinmeyer, Christopher A. Haiman, Gerardo Heiss, Lucia A. Hindorff, Chu-Nan Hsu, Rebecca D.
Jackson, Charles Kooperberg, Loic Le Marchand, Yi Lin, Tara C. Matise,
Kristine R. Monroe, Larry Moreland, Sungshim L. Park, Alex Reiner, Robert
Wallace, Lynn R. Wilkens, Dana C. Crawford, and Marylyn D. Ritchie.
Phenome-wide association study (PheWAS) for detection of pleiotropy within
the population architecture using genomics and epidemiology (PAGE) network. PLoS Genetics, 9(1):e1003087, 2013.
Yi-Hung Huang, John P. Rice, Scott F. Saccone, José Luis Ambite, Yigal
Arens, Jay A.Tischfield, and Chun-Nan Hsu. A ν-support vector regression based approach for predicting imputation quality. BMC Bioinformatics,
6(Suppl 7):S3, 2012.
S Buyske, Y Wu, CL Carty, I Cheng, TL Assimes, L Dumitrescu, LA Hindorff, S Mitchell, JL Ambite, E Boerwinkle, P Buzkova, CS Carlson,
B Cochran, D Duggan, CB Eaton, MD Fesinmeyer, N Franceschini,
J Haessler, N Jenny, HM Kang, C Kooperberg, Y Lin, L LeMarchand,
TC Matise, JG Robinson, C Rodriguez, FR Schumacher, BF Voight,
A Young, TA Manolio, KL Mohlke, CA Haiman, U Peters, DC Crawford,
and KE North. Evaluation of the metabochip genotyping array in african
americans and implications for fine mapping of gwas-identified loci: the page
study. PLoS One, 7(4):e35651, 2012.
Christopher A. Haiman, Megan D. Fesinmeyer, Kylee L. Spencer, Petra
Buzkova, V. Saroja Voruganti, Peggy Wan, Jeff Haessler, Nora Franceschini,
Kristine R. Monroe, Barbara V. Howard, Rebecca D. Jackson, Jose C. Florez, Laurence N. Kolonel, Steven Buyske, Robert J. Goodloe, Simin Liu,
JoAnn E. Manson, James B. Meigs, Kevin Waters, Kenneth J. Mukamal,
Sarah A. Pendergrass, Peter Shrader, Lynne R. Wilkens, Lucia A. Hindorff,
José Luis Ambite, Kari E. North, Ulrike Peters, Dana C. Crawford, Loic
Le Marchand, and James S. Pankow. Consistent directions of effect for established type 2 diabetes risk variants across populations. Diabetes, 61(6):1642–
1647, 2012.
Christy L. Avery, Qianchuan He, Kari E. North, José Luis Ambite,
Eric Boerwinkle, Myriam Fornage, Lucia A. Hindorff, Charles Kooperberg,
James B. Meigs, James S. Pankow, Sarah A. Pendergrass, Bruce M. Psaty,
Marylyn D. Ritchie, Jerome I. Rotter, Kent D. Taylor, Lynne R. Wilkens,
Gerardo Heiss, and Dan Yu Lin. A phenomics-based strategy identifies loci on
APOC1, BRAP, and PLCG1 associated with metabolic syndrome phenotype
domains. PLoS Genetics, 7(10):e1002322, 10 2011.
[15] Logan Dumitrescu, Cara L. Carty, Kira Taylor, Fredrick R. Schumacher, Lucia A. Hindorff, José Luis Ambite, Garnet Anderson, Lyle G. Best, Kristin
Brown-Gentry, Petra Buzkova, Christopher S. Carlson, Barbara Cochran,
Shelley A. Cole, Richard B. Devereux, Dave Duggan, Charles B. Eaton, Myriam Fornage, Nora Franceschini, Jeff Haessler, Barbara V. Howard, Karen C.
Johnson, Sandra Laston, Laurence N. Kolonel, Elisa T. Lee, Jean W. MacCluer, Teri A. Manolio, Sarah A. Pendergrass, Miguel Quibrera, Ralph V.
Shohet, Lynne R. Wilkens, Christopher A. Haiman, Loc Le Marchand, Steven
Buyske, Charles Kooperberg, Kari E. North, and Dana C. Crawford. Genetic determinants of lipid traits in diverse populations from the population
architecture using genomics and epidemiology (page) study. PLoS Genetics,
7(6):e1002138, 06 2011.
[16] 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, and Carl Kesselman for the Biomedical Informatics Research Network. Enabling collaborative research using the biomedical informatics research network (BIRN). Journal of the American Medical Informatics Association, 18(4):416–422, 2011.
[17] Tara 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, and Jonathan L. Haines.
The next PAGE in understanding complex traits: study design for analysis of
population architecture using genetics and epidemiology. American Journal
of Epidemiology, 174(7):849–859, 2011.
[18] Naveen Ashish, Jose-Luis Ambite, Maria Muslea, and Jessica Turner. Neuroscience data integration through mediation: An (F)BIRN case study. Frontiers in Neuroinformatics, 4(118), 2010.
[19] Snehal Thakkar, José Luis Ambite, and Craig A. Knoblock. Composing,
optimizing, and executing plans for bioinformatics web services. The VLDB
Journal, The International Journal on Very Large Data Bases, 14(3):330–
353, 2005.
[20] José Luis Ambite and Craig A. Knoblock. Planning by Rewriting. Journal
of Artificial Intelligence Research, 15:207–261, 2001.
[21] José Luis Ambite, Craig A. Knoblock, Ion Muslea, and Andrew Philpot.
Compiling source descriptions for efficient and flexible information integration. Journal of Intelligent Information Systems, 16(2):149–187, 2001.
[22] Craig A. Knoblock, Steven Minton, José Luis Ambite, Naveen Ashish, Ion
Muslea, Andrew G. Philpot, and Sheila Tejada. The Ariadne approach to
web-based information integration. International Journal of Cooperative Information Systems (IJCIS) Special Issue on Intelligent Information Agents:
Theory and Applications, 10(1-2):145–169, 2001.
[23] José Luis Ambite and Craig A. Knoblock. Flexible and scalable cost-based
query planning in mediators: A transformational approach. Artificial Intelligence Journal, 118 (1-2), pp 115-161, April 2000.
Book
Chapters
[24] Rahul Parundekar, Craig A. Knoblock, and José Luis Ambite. Aligning
ontologies of linked data. In Andreas Harth, Katja Hose, and Ralf Schenkel,
editors, Linked Data Management: Principles and Techniques. CRC Press,
2014.
[25] José Luis Ambite, Craig A. Knoblock, and Steve Minton. Plan optimization by plan rewriting. In Ioannis Vlahavas and Dimitris Vrakas, editors,
Intelligent Techniques for Planning. Idea Group Publishing, Hershey, PA,
2005.
[26] José Luis Ambite, Yigal Arens, Walter Bourne, Steve Feiner, Luis Gravano,
Vasileios Hatzivassiloglou, Eduard Hovy, Judith Klavans, Andrew Philpot,
Usha Ramachandran, Kenneth Ross, Jay Sandhaus, Deniz Sarioz, Rolfe R.
Schmidt, Cyrus Shahabi, Anurag Singla, Surabhan Temiyabutr, and Brian
Whitman. Data integration and access: The digital government research
center’s energy data collection (EDC) project. In William J. McIver and
Ahmed K. Elmagarmid, editors, Advances in Digital Government: Technology, Human Factors, and Policy. Kluwer Academic Publishers, 2002.
[27] Craig A. Knoblock and José Luis Ambite. Agents for information gathering.
In J. Bradshaw, editor, Software Agents. AAAI/MIT Press, Menlo Park, CA,
1997.
Articles in
Major
Refereed
Conferences
[28] George Konstantinidis and José Luis Ambite. Optimizing the chase: Scalable data integration under constraints. In Proceedings of 41st International
Conference on Very Large Data Bases, Kohala Coast, Hawaii, 2015.
[29] Mohsen Taheriyan, Craig A. Knoblock, Pedro Szekely, and Jose Luis Ambite.
A Scalable Approach to Learn Semantic Models of Structured Sources. In
Proceedings of the 8th IEEE International Conference on Semantic Computing (ICSC 2014), 2014.
[30] Mohsen Taheriyan, Craig A. Knoblock, Pedro Szekely, and José Luis Ambite. A graph-based approach to learn semantic descriptions of data sources.
In Proceedings of the 12th International Semantic Web Conference (ISWC
2013), Sydney, Australia, 2013.
[31] Rahul Parundekar, Craig A. Knoblock, and José Luis Ambite. Discovering
alignments in ontologies of linked data. In Proceedings of the 23rd International Joint Conference on Artificial Intelligence, Beijing, China, 2013. Track
on Best Papers in Sister Conferences.
[32] Rahul Parundekar, Craig A. Knoblock, and José Luis Ambite. Discovering
concept coverings in ontologies of linked data sources. In Proceedings of the
11th International Semantic Web Conference (ISWC 2012), Boston, MA,
2012. Best Research Paper Award.
[33] Mohsen Taheriyan, Craig A. Knoblock, Pedro Szekely, and José Luis Ambite. Rapidly integrating services into the linked data cloud. In Proceedings
of the 11th International Semantic Web Conference (ISWC 2012), Boston,
MA, 2012.
[34] Craig Knoblock, Pedro Szekely, José Luis Ambite, Aman Goel, Shubham Gupta, Kristina Lerman, Parag Mallick, Maria Muslea, and Mohsen
Taheriyan. Semi-automatically mapping structured sources into the semantic
web. In Proceedings of the 9th Extended Semantic Web Conference (ESWC),
Heraklion, Crete, Greece, 2012.
[35] George Konstantinidis and José Luis Ambite. Scalable query rewriting: A
graph-based approach. In Proceedings of the ACM SIGMOD International
Conference on Management of Data (SIGMOD 2011), Athens, Greece, 2011.
[36] Rahul Parundekar, Craig A. Knoblock, and José Luis Ambite. Linking and
building ontologies of linked data. In Proceedings of the 9th International
Semantic Web Conference (ISWC 2010), Shanghai, China, 2010.
[37] José Luis Ambite, Sirish Darbha, Aman Goel, Craig A. Knoblock, Kristina
Lerman, Rahul Parundekar, and Thomas Russ. Automatically constructing
semantic web services from online sources. In Proceedings of the 8th International Semantic Web Conference (ISWC 2009), Washington, D.C., 2009.
[38] Zachary G. Ives, Craig A. Knoblock, Steven Minton, Marie Jacob,
Partha Pratim Talukdar, Rattapoom Tuchinda, José Luis Ambite, Maria
Muslea, and Cenk Gazen. Interactive data integration through smart copy &
paste. In Fourth Biennial Conference on Innovative Data Systems Research
(CIDR), Pacific Grove, CA, January 2009.
[39] José Luis Ambite and Dipsy Kapoor. Automatically composing data workflows with relational descriptions and shim services. In Proceedings of the 6th
International Semantic Web Conference, Busan, Korea, 2007.
[40] José Luis Ambite and Dipsy Kapoor. Automatic generation of data processing workflows for transportation modeling. In Proceedings of the 8th Annual International Conference on Digital Government Research (dg.o2007),
Philadelphia, PA, USA, 2007. Best Paper Award.
[41] Snehal Thakkar, Craig A. Knoblock, and José Luis Ambite. Quality-driven
geospatial data integration. In Proceedings of the ACM International Workshop on Advances in Geographic Information Systems (ACMGIS 2007, Seattle, WA, USA, 2007.
[42] José Luis Ambite, Vinay K. Chaudhri, Richard Fikes, Jessica Jenkins, Sunil
Mishra, Maria Muslea, Tomas Uribe, and Guizhen Yang. Design and implementation of the CALO query manager. In The Eighteenth Conference on
Innovative Applications of Artificial Intelligence (IAAI-2006), Boston, Massachusetts, 2006.
[43] José Luis Ambite and Matthew Weathers. Automatic composition of aggregation workflows for transportation modeling. In Proceedings of the 6th
Annual National Conference on Digital Government Research (dg.o2005),
Atlanta, Georgia, 2005.
[44] José Luis Ambite, Genevieve Giuliano, Peter Gordon, Andreas Harth, LanLan Wang, Qisheng Pan, and Stefan Decker. Argos: Dynamic composition of
web services for goods movement analysis and planning. In Proceedings of the
5th Annual National Conference on Digital Government Research (dg.o2004),
Seattle, Washington, 2004.
[45] Shahram Ghandeharizadeh, Craig A. Knoblock, Christos Papadopoulos,
Cyrus Shahabi, Esam Alwagait, José Luis Ambite, Min Cai, Ching-Chien
Chen, Parikshit Pol, Rolfe Schmidt, Saihong Song, Snehal Thakkar, and Runfang Zhou. Proteus: A system for dynamically composing and intelligently
executing web services. In Proceedings of the First International Conference
on Web Services (ICWS-2003), Las Vegas, Nevada, 2003.
[46] José Luis Ambite, Greg Barish, Craig A. Knoblock, Maria Muslea, Jean Oh,
and Steven Minton. Getting from here to there: Interactive planning and
agent execution for optimizing travel. In Proceedings of the Fourteenth Innovative Applications of Artificial Intelligence Conference (IAAI-2002), pages
862–869, Edmonton, Alberta, Canada, 2002.
[47] José Luis Ambite, Genevieve Giuliano, Peer Gordon, Qisheng Pan, and
Sandipan Bharracharjee. Integrating heterogeneous sources for better freight
flow analysis and planning. In Proceedings of the Second National Conference
on Digital Government Research (dg.o 2002), Redondo Beach, California,
2002.
[48] José 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,
and Laura Zadoff. A portal for access to complex distributed information
about energy. In Proceedings of the Second National Conference on Digital
Government Research (dg.o 2002), Redondo Beach, California, 2002.
[49] Andrew Philpot, José Luis Ambite, and Eduard Hovy. DGRC AskCal:
Natural language question answering for energy time series. In Proceedings
of the Second National Conference on Digital Government Research (dg.o
2002), Redondo Beach, California, 2002.
[50] Craig A. Knoblock, Steve Minton, José Luis Ambite, Maria Muslea, Jean
Oh, and Martin Frank. Mixed-initiative, multi-source information assistants.
In The Tenth International World Wide Web Conference (WWW10), Hong
Kong, 2001.
[51] José Luis Ambite, Cyrus Shahabi, and Rolfe R. Schmidtand Andrew
Philpot. Fast approximate evaluation of OLAP queries for integrated statistical data. In Proceedings of the First National Conference for Digital
Government Research (dg.o2001), Redondo Beach, CA, 2001.
[52] Cyrus Shahabi, Mohammad R. Kolahdouzan, Snehal Thakkar, José Luis
Ambite, and Craig A. Knoblock. Efficiently querying moving objects with
pre-defined paths in a distributed environment. In Proceedings of the Ninth
ACM International Symposium on Advances in Geographic Information Systems (ACM-GIS-2001), Atlanta, GA, 2001.
[53] Craig A. Knoblock, José Luis Ambite, Steven Minton, Cyrus Shahabi, Mohammad Kolahdouzan, Maria Muslea, Jean Oh, and Snehal Thakkar. Integrating the world: The WorldInfo assistant. In International Conference on
Artificial Intelligence (ICAI-2001, Las Vegas, NV, 2001.
[54] Eduard Hovy, Andrew Philpot, José Luis Ambite, Yigal Arens, Judith Klavans, Walter Bourne, and Deniz Saroz. Data acquisition and integration
in the DGRC’s energy data collection project. In Proceedings of the First
National Conference for Digital Government Research (dg.o2001), Redondo
Beach, CA, 2001.
[55] José Luis Ambite, Craig A. Knoblock, and Steven Minton. Learning plan
rewriting rules. In Proceedings of the Fifth International Conference on Artificial Intelligence Planning and Scheduling Systems (ICAPS-2000), Breckenridge, CO, 2000.
[56] José Luis Ambite and Craig A. Knoblock. Flexible and scalable query planning in distributed and heterogeneous environments. In Proceedings of the
Fourth International Conference on Artificial Intelligence Planning Systems
(AIPS-1998), Pittsburgh, PA, 1998.
[57] Craig A. Knoblock, Steven Minton, José Luis Ambite, Naveen Ashish, Pragnesh Jay Modi, Ion Muslea, Andrew G. Philpot, and Sheila Tejada. Modeling web sources for information integration. In Proceedings of the Fifteenth
National Conference on Artificial Intelligence (AAAI-1998), Madison, WI,
1998.
[58] José Luis Ambite and Craig A. Knoblock. Planning by rewriting: Efficiently
generating high-quality plans. In Proceedings of the Fourteenth National
Conference on Artificial Intelligence (AAAI-1997), Providence, RI, 1997.
Abstracts/
Presentations
in Major
Refereed
[59] L Wang, KI Alpert, V Calhoun, D Keator, M King, A Kogan, D Landis,
Conferences
M Tallis, SG Potkin, JA Turner, and JL Ambite. Schizconnect: A one-stop
web-based resource for large-scale schizophrenia neuroimaging data integration. In 15th International Congress on Schizophrenia Research (ICOSR),
Colorado Springs, Colorado, USA, 2015. Abstract+Poster.
[60] L Wang, KI Alpert, V Calhoun, D Keator, M King, A Kogan, D Landis,
M Tallis, SG Potkin, JA Turner, and JL Ambite. Schizconnect: Large-scale
schizophrenia neuroimaging data integration and sharing. In Annual Meeting of the American College of Neuropsychopharmacology (ACNP), Phoenix,
Arizona, 2014. Abstract + Poster.
[61] José Luis Ambite, Leslie Lange, Shefali Sharma, Serban Voinea, Chun-Nan
Hsu, and Yigal Arens. Phenoexplorer: a tool to help researchers identify
relevant studies and phenotypic variables in dbgap. In 63nd Annual Meeting
of the American Society of Human Genetics (ASHG), Boston, MA, 2013.
Abstract + Poster.
[62] L. Fernndez-Rhodes, C. Carty, C. Kooperberg, U. Peters, T. Matise, J. L.
Ambite, E. Demerath, J. Dreyfus, M. Gross, N. Pankratz, E. Ramos, L. Hindorff, M. Daviglus, R. Kaplan, S. Castaeda, G. Heiss, U. Lim, C. Haiman,
L. Le Marchand, K. E. North, and N. Franceschini. Evidence for shared
genetic loci between body mass index and menarche timing among 5,357
hispanic/latina women in the population architecture using genomics and
epidemiology study. In 63nd Annual Meeting of the American Society of
Human Genetics (ASHG), Boston, MA, 2013. Abstract + Poster.
[63] J. M. Kocarnik, C. L. Carty, A. Reiner, C. L. Avery, C. M. Ballantyne,
J. Haessler, A. LaCroix, A. Young, T. L. Assimes, M. Barbalic, W. Tang,
L. G. Best, J. L. Ambite, I. Cheng, L. A. Hindorff, G. Heiss, C. A. Haiman,
C. L. Kooperberg, L. Le Marchand, and U. Peters. Genetic variants associated with c-reactive protein in african americans: a metabochip analysis in the population architecture using genomics and epidemiology (PAGE)
study. In 63nd Annual Meeting of the American Society of Human Genetics
(ASHG), Boston, MA, 2013. Abstract + Poster.
[64] Gowri Kumaraguruparan, Gaurang Mehta, Andrew Nato, José Luis Ambite,
Steve Buyske, Rajiv Mayani, Congxing Cai, Jens Vöckler, Ewa Deelman, and
Tara Matise. Curating genomic epidemiology data in the page study. In 62nd
Annual Meeting of the American Society of Human Genetics (ASHG), San
Francisco, CA, 2012. Abstract + Poster.
[65] Yigal Arens, José Luis Ambite, Chun-Nan Hsu, Leslie Lange, Shefali
Sharma, and Serban Voinea. Phenotype mapping using information explorer. In 62nd Annual Meeting of the American Society of Human Genetics
(ASHG), San Francisco, CA, 2012. Abstract + Poster.
[66] Chun-Nan Hsu, José Luis Ambite, Yigal Arens, Leslie Lange, Shefali
Sharma, and Serban Voinea. Active learning for phenotype mapping. In
62nd Annual Meeting of the American Society of Human Genetics (ASHG),
San Francisco, CA, 2012. Abstract + Poster.
[67] S. Buyske, Y. Wu, J. L. Ambite, 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, and K. North. Use and performance of the
metabochip genotyping array in african americans: the PAGE study. In
12th International Congress of Human Genetics, Montreal, Quebec, October
2011. Abstract + Oral Presentation.
[68] C.-N. Hsu, C.-J. Kuo, C. Cai, S. A. Pendergrass, T. C. Matise, M. D. Ritchie,
and J. L. Ambite. Mapping phenotype variables to support cross-study data
integration among genomic studies. In 12th International Congress of Human
Genetics, Montreal, Quebec, October 2011. Abstract + Poster.
[69] S. Pendergrass, E. S. Torstenson, J. L. Ambite, C. L. Avery, C. Cai, M. D.
Fesinmeyer, C. Haiman, G. Heiss, L. A. Hindorff, C.-N. Hsu, C. Kooperberg, L. Le Marchand, Y. Lin, T. C. Matise, K. Monroe, K. E. North, L. R.
Wilkens, S. Buyske, D. C. Crawford, and M. D. Ritchie. Phenome-wide
association study (phewas) for exploration of novel genotype-phenotype associations and pleiotropy using metabochip in the page network. In 12th International Congress of Human Genetics, Montreal, Quebec, October 2011.
Abstract + Poster.
[70] F. R. Schumacher, K. E. North, J. Haessler, K. L. Spencer, N. Franceschini,
K. R. Monroe, B. V. Howard, R. D. Jackson, W. H. L. Kao, L. N. Kolonel,
S. Liu, V. Aroda, L. H. Kuller, L. R. Wilkens, L. A. Hindorff, J. L. Ambite, L. Le Marchand, D. C. Crawford, S. Buyske, J. S. Pankow, U. Peters,
C. A. Haiman, Population Architecture using Genomics, and Epidemiology.
[71]
[72]
[73]
[74]
[75]
[76]
Fine-mapping of type 2 diabetes risk loci in african americans using the
metabochip: The PAGE study. In 12th International Congress of Human
Genetics, Montreal, Quebec, October 2011. Abstract + Poster.
Kari E North, Steven Buyske, Eric Boerwinkle, Christie Ballantyne, Carlos J Rodriguez, Fredrick Schumacher, , Iona Cheng, Tara C. Matise, Logan
Dumitrescu, Nora Franceschini, Charles Kooperberg, Ulrike Peters, David
Duggan, Chris Haiman, Themistocles L. Assimes, Charles B. Eaton, Jennifer G. Robinson, Loic Le Marchand, José L Ambite, Lucia Hindorff, Barbara Cochran, Cara Carty, Fred Hutchinson, Teri A. Manolio, Gerardo Heiss,
and Dana C. Crawford. The generalization of gwas based genetic effects for
lipid traits in african americans: The PAGE study. In American Heart Association Joint Conference, Atlanta, Georgia, March 2010. Abstract + Poster.
José Luis Ambite, Shefali Sharma, Chun-Nan Hsu, and Yigal Arens. Improving access to clinical and genetic data on mental disorders (abstract). In
60th Annual Meeting of the American Society of Human Genetics (ASHG),
Washington, DC, 2010. Abstract + Poster.
S. Pendergrass, K. Brown-Gentry, S. Dudek, J. L. Ambite, 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,
and M. D. Ritchie. 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). In 60th Annual
Meeting of the American Society of Human Genetics (ASHG), Washington,
DC, 2010. Abstract + Oral Presentation.
Dana 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, and Jonathan L. Haines. Population architecture using
genomics and epidemiology (page) – from snps to gwas and beyond. In 138th
American Public Health Association Annual Meeting, Denver, CO, November
2010. Abstract + Oral Presentation.
Fredrick R. Schumacher, Kari E. North, Jeff Haessler, Kylee L. Spencer,
Nora Franceschini, Kristine R. Monroe, Barbara V. Howard, Rebecca D.
Jackson, W. H. Linda Kao, Laurence N. Kolonel, Simin Liu, Vanita Aroda,
Lewis H. Kuller, Lynne R. Wilkens, Lucia A. Hindorff, José Luis Ambite,
Loic Le Marchand, Dana C. Crawford, Steven Buyske, James S. Pankow,
Ulrike Peters, and Christopher A. Haiman. Fine-mapping of type 2 diabetes
risk loci in african americans using the metabochip: The PAGE study. In
American Diabetes Association 71st Scientific Sessions, San Diego, CA, June
2011. Abstract.
T. C. Matise, J. L. Ambite, 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, and for PAGE. A new PAGE
in understanding complex traits: study design for analysis of population architecture using genomics and epidemiology (abstract 1781). In 59th Annual
Meeting of The American Society of Human Genetics, Honolulu, HI, 2009.
Abstract
Articles in
Refereed
Technical
Magazines
[77] Craig A. Knoblock, José Luis Ambite, Mark Carman andMatthew Michelson, Pedro Szekely, and Rattapoom Tuchinda. Beyond the elves: Making
intelligent agents intelligent. AI Magazine, 29(2), 2008.
[78] José Luis Ambite, Craig A. Knoblock, Maria Muslea, and Steven Minton.
Conditional constraint networks for interleaved planning and information
gathering. IEEE Intelligent Systems, 20(2), 2005.
[79] Craig A. Knoblock Steve Minton Snehal Thakkar Martin Michalowski, José
Luis Ambite and Rattapoom Tuchinda. Retrieving and semantically integrating heterogeneous data from the web. IEEE Intelligent Systems, 19(3),
2004.
[80] José Luis Ambite, Yigal Arens, Eduard Hovy, Andrew Philpot, Luis Gravano, Vasileios Hatzivassiloglou, and Judith Klavans. Simplifying data access:
The energy data collection (EDC) project. IEEE Computer, Special Issue on
Digital Government, 34(2), Febraury 2001.
[81] José Luis Ambite and Craig A. Knoblock. Agents for information gathering. IEEE Expert: Intelligent Systems and their Applications, September/October 1997.
Articles in
Refereed
Symposia
and
Workshops
[82] George Konstantinidis and José Luis Ambite. Scalable containment for
unions of conjunctive queries under constraints. In 5th International Workshop on Semantic Web Information Management (SWIM 2013), New York,
NY, 2013.
[83] George Konstantinidis and José Luis Ambite. Optimizing query rewriting
for multiple queries. In Proceedings of the 9th Workshop on Information
Integration on the Web (IIWeb 2012), Scottsdale, Arizona, 2012.
[84] Shefali Sharma, Leslie Lange, José Luis Ambite, Yigal Arens, and ChunNan Hsu. Exploring label dependency in active learning for phenotype mapping. In Proceedings of the 2012 Workshop on Biomedical Natural Language
Processing, pages 146–154, Montréal, Canada, June 2012. Association for
Computational Linguistics.
[85] Chun-Nan Hsu, Cheng-Ju Kuo, Congxing Cai, Sarah A. Pendergrass, Marylyn D. Ritchie, and José Luis Ambite. Learning phenotype mapping for
integrating large genetic data. In Proceedings of BioNLP 2011 Workshop,
BioNLP ’11, pages 19–27, Stroudsburg, PA, USA, 2011. Association for Computational Linguistics.
[86] Craig A. Knoblock, Pedro Szekely, José Luis Ambite, Shubham Gupta,
Aman Goel, Maria Muslea, Kristina Lerman, and Parag Mallick. Interactively mapping data sources into the semantic web. In Proceedings of the
First International Workshop on Linked Science 2011 in Conjunction with
the 10th International Semantic Web Conference, Bonn, Germany, 2011.
[87] Rahul Parundekar, Jose Luis Ambite, and Craig A. Knoblock. Aligning
unions of concepts in ontologies of geospatial linked data. In Proceedings of
the Terra Cognita 2011 Workshop in Conjunction with the 10th International
Semantic Web Conference, Bonn, Germany, 2011.
[88] Rahul Parundekar, Craig A. Knoblock, and José Luis Ambite. Linking the
deepweb to the linked dataweb. In AAAI Spring Symposium: Linked Data
Meets Artificial Intelligence, Stanford, CA, 2010.
[89] Rahul Parundekar, Craig A. Knoblock, and José Luis Ambite. Aligning
geospatial ontologies on the linked data web. In Proceedings of the Workshop
on Linked Spatiotemporal Data, 2010.
[90] José Luis Ambite, Cenk Gazen, Craig A. Knoblock, Kristina Lerman, and
Thomas Russ. Discovering and learning semantic models of online sources
for information integration. In Proceedings of the IJCAI Workshop on Information Integration on the Web (IIWeb), Pasadena, CA, 2009.
[91] José Luis Ambite, Craig A. Knoblock, Kristina Lerman, Anon Plangprasopchok, Thomas Russ, Cenk Gazen, Steven Minton, and Mark Carman.
Exploiting data semantics to discover, extract, and model web sources. In
First International Workshop on Semantic Aspects in Data Mining, Pisa,
Italy, December 2008.
[92] Stefan 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, and Uwe Zdun. Triple - an rdf rule language with context and use
cases. In W3C Workshop on Rule Languages for Interoperability, Washington, D.C., USA, 2005.
[93] Snehal Thakkar, José Luis Ambite, and Craig A. Knoblock. A data integration approach to automatically composing and optimizing web services. In
Proceedings of 2004 ICAPS Workshop on Planning and Scheduling for Web
and Grid Services, Whistler, BC, Canada, June 2004.
[94] Snehal Thakkar, Craig Knoblock, and José Luis Ambite. A view integration
approach to dynamic composition of web services. In Workshop on Planning
for Web Services, The 13th International Conference on Automated Planning
& Scheduling (ICAPS 2003), Trento, Italy, 2003.
[95] Snehal Thakkar, Craig A. Knoblock, José Luis Ambite, and Cyrus Shahabi.
Dynamically composing web services from on-line sources. In Workshop on
Intelligent Service Integration, The Eighteenth National Conference on Artificial Intelligence (AAAI-2002), Edmonton, Alberta, Canada, 2002.
[96] José Luis Ambite and Craig A. Knoblock. Flexible and scalable query access
planning using an AI planner. In Proceedings of the IEEE Knowledge and
Data Engineering Exchange Workshop, Newport Beach, CA, 1997.
[97] José Luis Ambite and Craig A. Knoblock. Reconciling distributed information sources. In Working Notes of the AAAI Spring Symposium on Information Gathering in Heterogeneous, Distributed Environments, Palo Alto, CA,
1995.
[98] José Luis Ambite and Craig Knoblock. Reconciling agent models. In
Proceedings of the Workshop on Intelligent Information Agents of the
Third International Conference on Information And Knowledge Management, Gaithersburg, MD, 1994.
Other
Publications
[99] Craig A. Knoblock, José Luis Ambite, Kavita Ganesan, Maria Muslea,
Steven Minton, Greg Barish, Evan Gamble, Claude Nanjo, Kane See, Cyrus
Shahabi, , and Ching-Chien Chen. EntityBases: Compiling, organizing and
querying massive entity repositories. In International Conference on Artificial Intelligence (ICAI’07), Las Vegas, Nevada, USA, June 2007.
[100] José Luis Ambite, Genevieve Giuliano, and Peter Gordon. Argos: Dynamic composition of web services for goods movement analysis and planning (project highlights 2007). In Proceedings of the 8th Annual International
Conference on Digital Government Research (dg.o2007), Philadelphia, PA,
USA, 2007.
[101] José Luis Ambite and Dipsy Kapoor. Argos: A framework for automatically generating data processing workflows. In Proceedings of the 8th Annual International Conference on Digital Government Research (dg.o2007),
Philadelphia, PA, USA, 2007. (System Demonstration).
[102] José Luis Ambite, Dipsy Kapoor, and Mountu Jinwala. Data processing
workflows in the social sciences: Representation and automatic generation.
In Proceedings of the 7th Annual National Conference on Digital Government
Research (dg.o2006), Atlanta, Georgia, 2006. Poster Presentation.
[103] José Luis Ambite, Genevieve Giuliano, Peter Gordon, Qisheng Pan, Mountu
Jinwala, Dipsy Kapoor, and LanLan Wang. Argos: Dynamic composition of
web services for goods movement analysis and planning. In Proceedings of the
7th Annual National Conference on Digital Government Research (dg.o2006),
Atlanta, Georgia, 2006. Project Highlights.
[104] José Luis Ambite, Vinay K. Chaudhri, Richard Fikes, Jessica Jenkins, Sunil
Mishra, Maria Muslea, Tomas Uribe, and Guizhen Yang. Integration of heterogeneous knowledge sources in the calo query manager. In The 4th International Conference on Ontologies, DataBases, and Applications of Semantics
(ODBASE-2005), Agia Napa, Cyprus, 2005. Poster Presentation.
[105] José Luis Ambite, Genevieve Giuliano, Peter Gordon, Andreas Harth,
Karanbir Jassar, Qisheng Pan, and LanLan Wang. Argos: An ontology
and web service composition infrastructure for goods movement analysis. In
Proceedings of the 5th Annual National Conference on Digital Government
Research (dg.o2004), Seattle, Washington, 2004. System Demonstration.
[106] José Luis Ambite, Craig A. Knoblock, Mohammad R. Kolahdouzan, Maria
Muslea, Cyrus Shahabi, and Snehal Thakkar. The worldinfo assistant:
Spatio-temporal information integration on the web. In Proceedings of
The Twenty Seventh International Conference on Very Large Data Bases
(VLDB2001), Rome, Italy, 2001. System Demonstration.
[107] José Luis Ambite, Naveen Ashish, Craig A. Knoblock, Steven Minton, Pragnesh J. Modi, Ion Muslea, Andrew Philpot, and Sheila Tejada. Ariadne:
A system for constructing mediators for internet sources. In Proceedings
of the ACM SIGMOD International Conference on Management of Data
(SIGMOD-1998), Seattle, Washington, 1998. System Demonstration.
[108] José Luis Ambite, Yigal Arens, Naveen Ashish, Craig A. Knoblock, Steven
Minton, Jay Modi, Maria Muslea, Andrew Philpot, Wei-Min Shen, Sheila Te-
jada, and Weixiong Zhang. The SIMS manual: Version 2.0. Technical report,
University of Southern California, Information Sciences Institute, 1997.
[109] José Luis Ambite and Craig A. Knoblock. Efficient planning by graph rewriting. In Proceedings of the Thirteenth National Conference on Artificial Intelligence (AAAI-1996), Portland, OR, 1996. Student Abstract.
[110] José Luis Ambite, Yigal Arens, Naveen Ashish, Chin Y. Chee, Chun-Nan
Hsu, Craig A. Knoblock, Wei-Min Shen, and Sheila Tejada. The SIMS manual: Version 1.0. Technical Report ISI/TM-95-428, University of Southern
California, Information Sciences Institute, 1995.
Ph.D. Thesis [111] José Luis Ambite. Planning by Rewriting. Ph.D. Dissertation, University of
Southern California, 1998.