| 2010 | BIBE | Detecting Coevolution of Functionally Related Proteins for Automated Protein Annotation. | Alan L. Kwan, Susan K. Dutcher, Gary D. Stormo |
| 2007 | PSB | Session Introduction. | Martha L. Bulyk, Alexander J. Hartemink, Ernest Fraenkel, Gary D. Stormo |
| 2003 | WABI | Selecting Degenerate Multiplex PCR Primers. | Richard Souvenir, Jeremy Buhler, Gary D. Stormo, Weixiong Zhang |
| 2002 | PSB | Identifying Muscle Regulatory Elements and Genes in the Nematode Caenorhabditis Elegans. | D. Guhathakurta, L. A. Schriefer, M. C. Hresko, R. H. Waterston, Gary D. Stormo |
| 2001 | PSB | SAMIE: Statistical Algorithm for Modeling Interaction Energies. | Panayiotis V. Benos, Alan S. Lapedes, D. S. Fields, Gary D. Stormo |
| 2000 | BIBE | Selecting Optimum DNA Oligos for Microarrays. | Fugen Li, Gary D. Stormo |
| 1999 | ISMB | A Phylogenetic Approach to RNA Structure Prediction. | Viatcheslav R. Akmaev, Scott T. Kelley, Gary D. Stormo |
| 1999 | PSB | Modeling Regulatory Networks with Weight Matrices. | D. C. Weaver, Christopher T. Workman, Gary D. Stormo |
| 1997 | ISMB | Finding Common Sequence and Structure Motifs in a Set of RNA Sequences. | Jan Gorodkin, Laurie J. Heyer, Gary D. Stormo |
| 1997 | ISMB | Automated Alignment of RNA Sequences to Pseudoknotted Structures. | Jack E. Tabaska, Gary D. Stormo |
| 1995 | ISMB | Graph-Theoretic Approach to RNA Modeling Using Comparative Data. | Robert B. Cary, Gary D. Stormo |
| 1994 | ISMB | Neural Networks for Determining Protein Specificity and Multiple Alignment of Binding Sites. | John M. Heumann, Alan S. Lapedes, Gary D. Stormo |
| 1994 | ISMB | Optimally Parsing a Sequence into Different Classes Based on Multiple Types of Evidence. | Gary D. Stormo, David Haussler |