Publications
2006
- Collection-Oriented Scientific
Workflows for Integrating and Analyzing Biological Data,
Timothy McPhillips, Shawn Bowers, Bertram Ludaescher. 3rd
International Workshop on Data Integration in the Life
Sciences (DILS'06),
European Bioinformatics Institute (EBI), Hinxton, UK, July 20-22,
2006.
- A Model for User-Oriented Data
Provenance in Pipelined Scientific Workflows, Shawn
Bowers, Timothy McPhillips, Bertram Ludaescher, Shirley Cohen,
Susan B. Davidson. International Provenance and Annotation
Workshop (IPAW'06), Chicago,
Illinois, USA, May 3-5, 2006.
- Enabling Scientific Workflow
Reuse through Structured Composition of Dataflow and
Control-Flow, Shawn Bowers, Bertram Ludaescher, Anne
H.H. Ngu, Terence Critchlow. Post-ICDE IEEE Workshop on
Workflow and Data Flow for Scientific Applications (SciFlow'06),
Atlanta, GA, April 8th 2006.
- The Center for Plasma Edge
Simulation Workflow Requirements, Scott A. Klasky, Bertram
Ludaescher, and Manish Parashar. Post-ICDE IEEE Workshop on
Workflow and Data Flow for Scientific Applications (SciFlow'06),
Atlanta, GA, April 8th 2006.
- A Calculus for Propagating Semantic
Annotations through Scientific Workflow Queries, Shawn
Bowers, Bertram Ludaescher. Query Languages and Query
Processing (QLQP'06), EDBT'06
Post-Conference Workshop, Munich, Germany. March 30-31, 2006.
2005
- Rewriting
Queries Using Views with Access Patterns Under Integrity
Constraints, A. Deutsch, B. Ludäscher, and A. Nash,
Intl. Conference on Database Theory (ICDT'05),
Edinburgh, Scotland, January 2005.
- Managing Scientific Data: From
Data Integration to Scientific Workflows, B.
Ludäscher, K. Lin, S. Bowers, E. Jaeger-Frank, B.
Brodaric, C. Baru, GSA Today, Special Issue on
Geoinformatics, to appear, 2005.
- Scientific Workflow Management
and the Kepler System, B. Ludäscher, I. Altintas,
C. Berkley, D. Higgins, E. Jaeger-Frank, M. Jones, E. Lee,
J. Tao, Y. Zhao, Concurrency and Computation: Practice &
Experience, Special Issue on Scientific Workflows, to
appear, 2005.
- Actor-Oriented
Design of Scientific Workflows, Shawn Bowers and Bertram
Ludäscher, 24th Intl. Conference on Conceptual
Modeling (ER'05),
Klagenfurt, Austria, LNCS, Springer, 2005.
- A Framework for the Design and
Reuse of Grid Workflows, Ilkay Altintas, Adam Birnbaum,
Kim Baldridge, Wibke Sudholt, Mark Miller, Celine Amoreira,
Yohann Potier, and Bertram Ludaescher, Intl. Workshop on
Scientific Applications on Grid Computing (SAG'04), LNCS
3458, Springer, 2005
- Towards Automatic Generation of
Semantic Types in Scientific Workflows, Shawn Bowers and
Bertram Ludaescher, Intl. Workshop on Scalable Semantic Web
Knowledge Base Systems (SSWS'05),
LNCS, Springer, 2005.
- Incorporating Semantics in
Scientific Workflow Authoring, C. Berkley, S. Bowers,
M. Jones, B. Ludäscher, M. Schildhauer, J. Tao, 17th
International Conference on Scientific and Statistical Database
Management (SSDBM'05),
27-29 June 2005, Santa Barbara, California.
- Creating and Providing Data
Management Services for the Biological and Ecological Sciences
(SEEK), S. Romanello, J. Beach, S. Bowers, M. Jones, B.
Ludäscher, W. Michener, D. Pennington, A. Rajasekar,
M. Schildhauer, 17th International Conference on Scientific
and Statistical Database Management (SSDBM'05),
27-29 June 2005, Santa Barbara, California.
- A Scientific Workflow Approach
to Distributed Geospatial Data Processing using Web
Services, E. Jaeger, I. Altintas, J. Zhang,
B. Ludäscher, D. Pennington, W. Michener, 17th International
Conference on Scientific and Statistical Database Management
(SSDBM'05),
27-29 June 2005, Santa Barbara, California.
2004
- An
Ontology-Driven Framework for Data Transformation in Scientific
Workflows, S. Bowers and B. Ludäscher,
Intl. Workshop on Data Integration in the Life Sciences
(DILS'04),
March 25-26, 2004 Leipzig, Germany, LNCS 2994.
- On
Integrating Scientific Resources through Semantic
Registration, S. Bowers, K. Lin, and B. Ludäscher,
16th International Conference on Scientific and Statistical
Database Management (SSDBM'04), 21-23 June
2004, Santorini Island, Greece.
-
Processing First-Order Queries under Limited Access
Patterns, Alan Nash and B. Ludäscher, Proc. 23rd
ACM Symposium on Principles of Database Systems (PODS'04)
Paris, France, June 2004.
-
Processing Unions of Conjunctive Queries with Negation under
Limited Access Patterns, Alan Nash and
B. Ludäscher., 9th Intl. Conference on Extending
Database Technology (EDBT'04) Heraklion, Crete, Greece,
March 2004, LNCS 2992.
- Web
Service Composition Through Declarative Queries: The Case of
Conjunctive Queries with Union and Negation,
B. Ludäscher and Alan Nash. Research abstract (poster),
20th Intl. Conference on Data Engineering (ICDE'04) Boston, IEEE
Computer Society, April 2004.
- A Web Service Composition and Deployment Framework for
Scientific Workflows, I. Altintas, E. Jaeger, K. Lin,
B. Ludaescher, A. Memon, In the 2nd Intl. Conference on Web
Services (ICWS), San
Diego, California, July 2004.
- Kepler:
An Extensible System for Design and Execution of Scientific
Workflows, I. Altintas, C. Berkley, E. Jaeger, M. Jones,
B. Ludäscher, S. Mock, 16th International Conference on
Scientific and Statistical Database Management (SSDBM'04), 21-23 June
2004, Santorini Island, Greece.
- Kepler: Towards a
Grid-Enabled System for Scientific Workflows, Ilkay
Altintas, Chad Berkley, Efrat Jaeger, Matthew Jones, Bertram
Ludäscher, Steve Mock, Workflow in
Grid Systems (GGF10), Berlin, March 9th, 2004.
2003
- A Model-Based Mediator System for Scientific Data
Management, B. Ludäscher, A. Gupta, and M. E. Martone.
In Z. Lacroix and T. Critchlow editors, Bioinformatics:
Managing Scientific Data. Morgan Kaufmann, 2003.
-
Towards a Formalization of
Disease-Specific Ontologies for Neuroinformatics, A. Gupta,
B. Ludäscher, J. S. Grethe, and M. E. Martone. Neural
Networks, 16 (2003) 1277-1292, Special Issue on Neuroinformatics,
2003.
- A System
for Semantic Integration of Geologic Maps via Ontologies,
K. Lin and B. Ludäscher. In Semantic Web Technologies for
Searching and Retrieving Scientific Data (SCISW),
Sanibel Island, Florida, 2003.
- Towards a
Generic Framework for Semantic Registration of Scientific
Data, S. Bowers and B. Ludäscher. In Semantic Web
Technologies for Searching and Retrieving Scientific Data (SCISW),
Sanibel Island, Florida, 2003.
- Compiling
Abstract Scientific Workflows into Web Service Workflows,
B. Ludäscher, I. Altintas, and A. Gupta, 15th Intl. Conference
on Scientific and Statistical Database Management (SSDBM),
Boston, Massachusetts, 2003.
- On Providing
Declarative Design and Programming Constructs for Scientific Workflows
based on Process Networks, B. Ludäscher I. Altintas, Technical
Report, SciDAC-SPA-TN-2003-01, 2003.
- A
Modeling and Execution Environment for Distributed Scientific
Workflows, I. Altintas, S. Bhagwanani, D. Buttler, S. Chandra,
Z. Cheng, M. Coleman, T. Critchlow, A. Gupta, W. Han, L. Liu,
B. Ludäscher, C. Pu, R. Moore, A. Shoshani, and M. Vouk,
demonstration track, 15th Intl. Conference on Scientific and
Statistical Database Management (SSDBM),
Boston, Massachusetts, 2003.
- BIRN-M: A Semantic Mediator
for Solving Real-World Neuroscience Problems, A. Gupta,
B. Ludäscher, and M. Martone. demonstration track, ACM
Intl. Conference on Management of Data (SIGMOD),
2003.
- The Many Faces of Process Interaction Graphs: A
Data Management Perspective, A. Gupta and
B. Ludäscher. Workshop on Data Management for Molecular and
Cell Biology, to appear in OMICS - A Journal of Integrative
Biology, NIH Campus, Bethesda, MD, 2003.
- The
Role of XML in Mediated Data Integration Systems with Examples from
Geological (Map) Data Interoperability, B. Brodaric,
B. Ludäscher, and K. Lin. In Geological Society of America
(GSA) Annual Meeting, volume 35(6), November 2003.
- Semantic
Mediation Services in Geologic Data Integration: A Case Study from the
GEON Grid, K. Lin, B. Ludäscher, B. Brodaric, D. Seber,
C. Baru, and K. A. Sinha. In Geological Society of America (GSA)
Annual Meeting, volume 35(6), November 2003.
- Igneous
Rocks, Terranes and GEON, K. A. Sinha, C. Smyth, A. Zendel,
B. Brodaric, C. Barnes, A. Snoke, B. Ludäscher, D. Seber, and
C. Baru. In Geological Society of America (GSA) Annual
Meeting, volume 35(6), November 2003.
- Mining the Frequency Distribution of Transcription
Factor Binding Sites of Ionizing Radiation Responsive Genes,
L. Peterson, E. Yin, D. Nelson, I. Altintas, B. Ludäscher,
T. Critchlow, A. J. Wyrobek, and M. A. Coleman. In New
Horizons in Genomics, DOE/SC-0071, Santa Fe, New Mexico.,
March 30-April 1 2003.
2002
- A
Transducer-Based XML Query Processor, B. Ludäscher,
P. Mukhopadhyay, Y. Papakonstantinou, 28th Intl. Conference
on Very Large Databases (VLDB),
Hong Kong, August 2002.
- Understanding
the Global Semantics of Referential Actions using Logic
Rules, W. May, B. Ludäscher, ACM Transactions on
Database Systems (TODS),
27(4), 343-397, 2002.
- Federation of Brain
Data through Knowledge-Guided Mediation M. E. Martone,
A. Gupta, B. Ludäscher, I. Zaslavsky, and M. H. Ellisman.
In R. Kötter, editor, Neuroscience Databases. A
Practical Guide, pp. 275-292. Kluwer Academic Publishers,
2002.
- Scientific Data
Integration. Report on the EDBT'02 Panel O. Boucelma,
S. Castano, C. A. Goble, V. Josifovski, Z. Lacroix, and
B. Ludäscher. In ACM SIGMOD Record, 31(4):107-112,
2002.
- Time to
Leave the Trees: From Syntactic to Conceptual Querying of
XML, B. Ludäscher, I. Altintas, A. Gupta,
Intl. Workshop on XML Data Management (XMLDM),
Prague, Czech Republic, March 2002, LNCS 2490, Springer,
pp. 148-168.
- Registering
Scientific Information Sources for Semantic Mediation,
A. Gupta, B. Ludäscher, M. E. Martone, 21st
International Conference on Conceptual Modeling, (ER), LNCS 2503, Tampere, Finland,
October 2002.
- Ontology
Services for Curriculum Development in NSDL, A. Gupta,
B. Ludäscher, R. Moore, Joint Conference on Digital
Libraries (JCDL), Portland, Oregon, July 2002.
- Navigating
Virtual Information Sources with Know-ME, X. Qian,
B. Ludäscher, M. E. Martone, A. Gupta, demonstration
track, Intl. Conference on Extending Database Technology (EDBT),
Prague, Czech Republic, March 2002.
- A
System for Managing Alternate Models in Model-based
Mediation, A. Gupta, B. Ludäscher, M. E. Martone,
X. Qian, E. Ross, J. Tran, I. Zaslavsky, demonstration track,
British Natl. Conf. on Databases (BNCOD),
Sheffield, UK, July 2002.
- Multi-Level
Information Modeling and Preservation of eGOV Data,
R. Marciano, B. Ludäscher, R. Moore, I. Zaslavsky,
K. Pezzoli, Intl. Conference on E-Government (EGOV),
LNCS 2456, pp. 93-100, Aix-en-Provence, France, September 2002.
- A
Cell-Centered Database for Electron Tomographic Data,
M. E. Martone, A. Gupta, M. Wong, X. Qian, G. Sosinsky,
S. Lamont, B. Ludäscher, M. H. Ellisman, Journal of
Structural Biology, 138(1-2), 145-155, 2002.
- Distributed
Data Management Architecture for Embedded Computing,
Hans-Werner Braun, Todd Hansen, Kent Lindquist, Bertram Ludäscher, John
Orcutt, Arcot Rajasekar, Frank Vernon, 6th Workshop on High
Performance Embedded Computing, MIT Lincoln Laboratory,
Sept. 2002.
- Generalizing Seismic Processing
Systems to Diverse Signal Domains, K.G. Lindquist,
F.L. Vernon, T.S. Hansen, A. Rajasekar, B. Ludaescher,
J. Orcutt, J. Berger, H.W. Braun, Y. Bock (2002). in
Abstracts from the Fourteenth Annual
IRIS Workshop, Waikoloa, Hawaii, June 12-16, The IRIS
Consortium.
2001
- Model-Based
Mediation with Domain Maps,
B. Ludäscher, A. Gupta, M. E. Martone, 17th
Intl. Conference on Data Engineering (ICDE),
Heidelberg, Germany, IEEE Computer Society, April 2001.
- An
Extensible Model-Based Mediator System with Domain Maps,
A. Gupta, B. Ludäscher, M. E. Martone, demonstration
track, 17th Intl. Conference on Data Engineering (ICDE),
Heidelberg, Germany, IEEE Computer Society, April 2001.
- Towards a Federated
Neuroscientific Knowledge Management System using Brain
Atlases, Gully A.P.C.Burns, Klaas Stephan, Bertram
Ludäscher, Amarnath Gupta, Rolf Kötter, Neurocomputing
38-40, pp. 1633-1641, Elsevier, 2001.
- Preservation
of Digital Data with Self-Validating, Self-Instantiating
Knowledge-Based Archives, B. Ludäscher, R. Marciano,
R. Moore, ACM SIGMOD Record, 30(3), 54-63, 2001.
- Towards
Self-Validating Knowledge-Based Archives, B. Ludäscher,
R. Marciano, R. Moore, 11th Workshop on Research Issues in
Data Engineering (RIDE),
Heidelberg, Germany, IEEE Computer Society, April 2001.
2000
- Model-Based
Information Integration in a Neuroscience Mediator System,
B. Ludäscher, A. Gupta, M. E. Martone, demonstration
track, 26th Intl. Conference on Very Large Databases (VLDB),
Cairo, Egypt, September 2000.
- Knowledge-Based
Integration of Neuroscience Data Sources, A. Gupta,
B. Ludäscher, M. E. Martone, 12th Intl. Conference on
Scientific and Statistical Database Management (SSDBM),
Berlin, Germany, IEEE Computer Society, July 2000.
- Navigation-Driven
Evaluation of Virtual Mediated Views, B. Ludäscher,
Y. Papakonstantinou, P. Velikhov, Intl. Conference on
Extending Database Technology (EDBT),
Konstanz, Germany, LNCS 1777, Springer, March 2000.
- Games and Total DatalogNeg
Queries, J. Flum, M. Kubierschky, B. Ludäscher, Theoretical
Computer Science, 239(2), pp.257-276, Elsevier, 2000.
- BBQ:
Blended Browsing and Querying of XML in a Lazy Mediator
System, K. Munroe, B. Ludäscher, Y. Papakonstantinou,
demonstration track, Intl. Conference on Extending Database
Technology (EDBT),
Konstanz, Germany, March 2000.
- Collection-Based
Persistent Digital Archives, Reagan Moore, Chaitan Baru,
Arcot Rajasekar, Bertram Ludäscher, Richard Marciano,
Michael Wan, Wayne Schroeder, Amarnath Gupta, D-Lib
Magazine, 6(3 & 4), March [Part
1] and April [Part
2], 2000.
- Search
Middleware and the Simple Digital Library Interoperability
Protocol, Andreas Paepcke, Robert Brandriff, Greg Janee, Ray
Larson, Bertram Ludäscher, Sergey Melnik, Sriram Raghavan,
D-Lib Magazine, 6(3), March 2000.
1999
- Modeling Interactive Web
Sources for Information Mediation, B. Ludäscher,
A. Gupta, Intl. Workshop on the World-Wide Web and Conceptual
Modeling (WWWCM'99),
Paris, France, LNCS 1727, Springer, November 1999.
- A Framework for
Navigation-Driven Lazy Mediators, B. Ludäscher,
Y. Papakonstantinou, P. Velikhov, ACM Workshop on the Web
and Databases (WebDB'99),
Philadelphia, June 1999.
- XML-Based Information Mediation
with MIX, C. Baru, A. Gupta, B. Ludäscher, R. Marciano,
Y. Papakonstantinou, P. Velikhov, V. Chu, exhibition program,
ACM Conf. on Management of Data (SIGMOD'99),
Philadelphia, June 1999.
- View Definition and DTD Inference
for XML, B. Ludäscher, Y. Papakonstantinou,
P. Velikhov, V. Vianu, Post-ICDT Workshop on Query
Processing for Semistructured Data and Non-Standard Data
Formats (SSD99),
Jerusalem, January 1999.
- XML-Based Information Mediation for
Digital Libraries, C. Baru, A. Gupta, V. Chu,
B. Ludäscher, R. Marciano, Y. Papakonstantinou,
P. Velikhov, exhibition program, ACM Conf. on Digital
Libraries (DL'99),
Berkeley, August 1999.
- A Unified Framework for
Wrapping, Mediating and Restructuring Information from the
Web, W. May, R. Himmeröder, G. Lausen,
B. Ludäscher, Intl. Workshop on the World-Wide Web and
Conceptual Modeling (WWWCM'99), Paris, France,
LNCS 1727, Springer, November 1999.
- FLORA:
The Secret of Object-Oriented Logic Programming, B.
Ludäscher, Guizhen Yang, Michael Kifer, Technical
Manual, SUNY at Stony Brook, 1999 (see also the new Flora-2 system by
G. Yang and M. Kifer)
1998
- Managing Semistructured Data with
FLORID: A Deductive Object-Oriented Perspective,
B. Ludäscher, R. Himmeröder, G. Lausen, W. May,
C. Schlepphorst, Information
Systems, 23(8), Special Issue on Semistructured Data, 1998.
- Referential Actions: From Logical
Semantics to Implementation, B. Ludäscher,
W. May. Proc. 6th Intl. Conference on Extending Database
Technology (EDBT'98),
Valencia, Spain, LNCS 1377, Springer, March 1998.
- Features and Requirements for an XML
View Definition Language: Lessons from XML Information
Mediation, C. Baru, B. Ludäscher, Y. Papakonstantinou,
P. Velikhov, V. Vianu, position paper, W3C Query Languages
Workshop (QL'98), Boston,
Massachusetts, December 1998.
- Techniques and Rule Patterns for
Declaratively Querying Web Data with FLORID,
B. Ludäscher, R. Himmeröder, W. May,
Deklarative KI-Methoden zur Implementierung und Nutzung von
Systemen in Netzen (Workshop
KI-98), Bremen, Germany, September 1998.
- Search, Analysis, and Integration of
Web Documents: A Case Study with FLORID, R. Himmeröder,
P.-Th. Kandzia, B. Ludäscher, W. May, G. Lausen,
Proc. Intl. Workshop on Deductive Databases and Logic
Programming (DDLP'98),
Manchester, UK, June 1998.
- Querying the Web with
FLORID, R. Himmeröder, B.
Ludäscher, 10. GI-Workshop: Grundlagen von
Datenbanken (GvD'98),
Konstanz, Germany, June 1998.
- FLORID: A
DOOD-System for Querying the Web, R. Himmeröder,
G. Lausen, B. Ludäscher, Christian Schlepphorst,
Demonstration Session at EDBT'98, Valencia, Spain, March 1998.
- Integration of Active and Deductive
Database Rules, B. Ludäscher, PhD thesis,
DISDBIS 45, infix-Verlag, Sankt Augustin, ISBN
3-89601-445-5, 1998.
- On Active Deductive Databases: The
Statelog Approach, G. Lausen, B. Ludäscher, and
W. May. In
Transactions and Change in Logic Databases,
Hendrik Decker, Burkhard Freitag, Michael Kifer, and Andrei
Voronkov, editors. LNCS 1472, Springer, 1998.
- On Logical Foundations of Active
Databases, G. Lausen, B. Ludäscher, and
W. May. In
Logics for Databases and Information Systems, Jan
Chomicki and Gunter Saake, editors. Kluwer Academic Publishers,
1998.
- Maintaining
Well-Founded Views in Constraint Databases, James Lu,
B. Ludäscher, J. Schü, V.S. Subrahmanian. In
T. Martin and F. A. Fontana, editors, Logic Programming and Soft
Computing, pp.129-144, Wiley, 1998.
1997
- Referential Actions as Logical
Rules, B. Ludäscher, W. May, G. Lausen, Proc. 16th
ACM Symposium on Principles of Database Systems (PODS'97),
Tucson, Arizona, ACM Press, May 1997.
- Total and Partial Well-Founded
Datalog Coincide, J. Flum, M. Kubierschky, B.
Ludäscher, Proc. 6th Intl. Conference on Database
Theory (ICDT'97),
LNCS 1186, Springer, Delphi, Greece, January 1997.
- Handling Termination in a Logical
Language for Active Rules, B. Ludäscher, G.
Lausen. Informatica, Vol. 9, No. 1, 65-87, Lithuanian
Academy of Sciences, Special Issue on the 7th Advanced
Course on Artificial Intelligence (ACAI'97),
Vilnius, June 1997.
- On a Declarative Semantics for
Web Queries, R. Himmeröder, G. Lausen, B.
Ludäscher, Christian Schlepphorst, Proc. 5th
Intl. Conf. on Deductive and Object-Oriented Databases (DOOD'97),
Montreux, Switzerland, LNCS 1341, Springer, December 1997.
- Well-Founded Semantics for
Deductive Object-Oriented Database Languages, W.
May, B. Ludäscher, G. Lausen, Proc. 5th
Intl. Conf. on Deductive and Object-Oriented Databases (DOOD'97),
Montreux, Switzerland, LNCS 1341, Springer, December 1997.
1992 - 1996
- Nested Transactions in a Logical
Language for Active Rules, B. Ludäscher, W. May,
G. Lausen, Proc. Intl. Workshop on Logic in Databases
(LID'96),
San Miniato, Italy, LNCS 1154, Springer, 1996.
- Towards a Logical Semantics for
Referential Actions in SQL, B. Ludäscher, W.
May, J. Reinert, Proc. 6th Intl. Workshop on
Foundations of Models and Languages for Data and Objects:
Integrity
in Databases, Dagstuhl, Germany, September 1996.
- A Logical Framework for Active
Rules, B. Ludäscher, U. Hamann, G. Lausen,
Proc. 7th Intl. Conf. on Management of Data (COMAD'95),
Tata-McGraw Hill, Pune, India, December 1995.
- Reconciling Active and Deductive
Databases by States, B. Ludäscher, U. Hamann,
G. Lausen, Technical Report 70, Institut für
Informatik, Universität Freiburg, 1995.
- Zustandsorientierte Beschreibung von
Updates in deduktiven Datenbanken (in German), U. Hamann,
B. Ludäscher, 7. GI-Workshop: Grundlagen von
Datenbanken (GvD'95),
Hildesheim, Germany, 1995.
- Updates by Reasoning about States,
G. Lausen, B. Ludäscher, Proc. 2nd Intl. East/West
Database Workshop (EWDW'94),
Klagenfurt, Austria, Workshops in Computing, Springer, 1994.
- Towards First-Order Deduction Based
on Shannon-Graphs, J. Posegga, B. Ludäscher,
Proc. 16th German Conf. on AI (GWAI), LNAI 671,
Springer, 1992.
- A First-Order Deduction System Based on
Shannon Graphs, B. Ludäscher, Masters
thesis, (in German), Universität Karlsruhe, 1992.
Reports
_