| 2007 | WABI | Using Protein Domains to Improve the Accuracy of | Mihaela Pertea, Steven Salzberg |
| 2003 | KDD | Genome Paleontology: Discoveries from Complete Genomes. | Steven Salzberg |
| 2002 | WABI | A Method to Improve the Performance of Translation Start Site Detection and Its Application for Gene Finding. | Mihaela Pertea, Steven Salzberg |
| 1996 | ISMB | Finding Genes in DNA Using Decision Trees and Dynamic Programming. | Steven Salzberg, Xin Chen, John C. Henderson, Kenneth H. Fasman |
| 1996 | KDD | Local Induction of Decision Trees: Towards Interactive Data Mining. | Truxton Fulton, Simon Kasif, Steven Salzberg, David L. Waltz |
| 1995 | ICML | Efficient Algorithms for Finding Multi-way Splits for Decision Trees. | Truxton Fulton, Simon Kasif, Steven Salzberg |
| 1995 | IJCAI | Lookahead and Pathology in Decision Tree Induction. | Sreerama K. Murthy, Steven Salzberg |
| 1995 | KDD | Decision Tree Induction: How Effective is the Greedy Heuristic? | Sreerama K. Murthy, Steven Salzberg |
| 1994 | ICML | Towards a Better Understanding of Memory-based Reasoning Systems. | John Rachlin, Simon Kasif, Steven Salzberg, David W. Aha |
| 1993 | AAAI | OC1: A Randomized Induction of Oblique Decision Trees. | Sreerama K. Murthy, Simon Kasif, Steven Salzberg, Richard Beigel |
| 1993 | IJCAI | Induction of Oblique Decision Trees. | David G. Heath, Simon Kasif, Steven Salzberg |
| 1991 | IJCAI | Learning Nested Concept Classes with Limited Storage. | David G. Heath, Simon Kasif, S. Rao Kosaraju, Steven Salzberg, Gregory F. Sullivan |
| 1991 | IJCAI | Learning with a Helpful Teacher. | Steven Salzberg, Arthur L. Delcher, David G. Heath, Simon Kasif |
| 1991 | ISMIS | Distance Metrics for Instance-Bsed Learning. | Steven Salzberg |
| 1985 | IJCAI | Heuristics for Inductive Learning. | Steven Salzberg |
| 1983 | AAAI | Generating Hypotheses to Explain Prediction Failures. | Steven Salzberg |