| 2007 | SSDBM | Incorporating Uncertainty Metrics into a General-Purpose Data Integration System. | Brenton Louie, Landon Detwiler, Nilesh N. Dalvi, Ron Shaker, Peter Tarczy-Hornoch, Dan Suciu |
| 2005 | AMIA | Integration of Data for Gene Annotation Using the BioMediator System. | Brenton Louie, Peter Mork, Ron Shaker, Natali Kolker, Eugene Kolker, Peter Tarczy-Hornoch |
| 2005 | AMIA | BioMediator Data Integration: Beyond Genomics to Neuroscience Data. | Kelan Wang, Peter Tarczy-Hornoch, Ron Shaker, Peter Mork, James F. Brinkley |
| 2003 | AMIA | Expression Array Annotation Using the BioMediator Biological Data Integration System and the BioConductor Analytic Platform. | Hao Mei, Peter Tarczy-Hornoch, Peter Mork, Anthony J. Rossini, Ron Shaker, Loren Donelson |
| 2002 | AMIA | PQL: a declarative query language over dynamic biological schemata. | Peter Mork, Ron Shaker, Alon Y. Halevy, Peter Tarczy-Hornoch |
| 2002 | AMIA | A rule driven bi-directional translation system for remapping queries and result sets between a mediated schema and heterogeneous data sources. | Ron Shaker, Peter Mork, Matt Barclay, Peter Tarczy-Hornoch |