| 2006 | ICDE | Implementing a Bioinformatics Pipeline (BIP) on a Mediator Platform: Comparing Cost and Quality of Alternate Choices. | Barbara A. Eckman, Terry Gaasterland, Zo Lacroix, Louiqa Raschid, Ben Snyder, Maria-Esther Vidal |
| 2004 | RECOMB | Databases for Comparative Analysis of Human-Mouse Orthologous Alternative Splicing. | Bahar Taneri, Alexey Novoradovsky, Ben Snyder, Terry Gaasterland |
| 1995 | IJCAI | Selecting Tense, Aspect, and Connecting Words In Language Generation. | Bonnie J. Dorr, Terry Gaasterland |
| 1995 | ISMB | Reconstruction of Metabolic Networks Using Incomplete Information. | Terry Gaasterland, Evgeni Selkov |
| 1994 | ISMB | Assigning Function to CDS Through Qualified Query Answering: Beyond Alignment and Motifs. | Terry Gaasterland, Natalia Maltsev, Jorge Lobo, Guo-Hua Chen |
| 1994 | VLDB | Qualified Answers That Reflect User Needs and Preferences. | Terry Gaasterland, Jorge Lobo |
| 1993 | CoopIS | Restricting Query Relaxation through User Constraints. | Terry Gaasterland |
| 1993 | ISMIS | Using Semantic Information for Processing Negation and Disjunction in Logic Programs. | Terry Gaasterland, Jorge Lobo |
| 1992 | LPAR | A Cooperative Answering System. | Terry Gaasterland, Parke Godfrey, Jack Minker, Lev Novik |