| 2017 | SIGCSE | Panel: Teaching To Increase Diversity and Equity in STEM. | Helen H. Hu, Douglas Blank, Albert Chan, Travis E. Doom |
| 2017 | SIGCSE | Infrastructure for Continuous Assessment of Retained Relevant Knowledge. | Kathleen Timmerman, Travis E. Doom |
| 2007 | BIBE | A Proposed Statistical Protocol for the Analysis of Metabolic Toxicological Data Derived from NMR Spectroscopy. | Benjamin J. Kelly, Paul E. Anderson, Nicholas V. Reo, Nicholas J. DelRaso, Travis E. Doom, Michael L. Raymer |
| 2007 | BIBE | A Multi-Objective Genetic Algorithm that Employs a Hybrid Approach for Isolating Codon Usage Bias Indicative of Translational Efficiency. | Douglas W. Raiford, Dan E. Krane, Travis E. Doom, Michael L. Raymer |
| 2006 | BIBE | Isolation and Visualization of Codon Usage Biases. | Douglas W. Raiford, Dan E. Krane, Travis E. Doom, Michael L. Raymer |
| 2006 | BIBE | Parsimony approach to test the Evolving Master Gene hypothesis for human Alu repeats. | Sridhar Ramachandran, Travis E. Doom, Michael L. Raymer, Dan E. Krane |
| 2005 | BIBE | Stochastic Model of Protease-Ligand Reactions. | Paul E. Anderson, Douglas W. Raiford, Deacon J. Sweeney, Travis E. Doom, Michael L. Raymer |
| 2005 | CEC | GA-facilitated KNN classifier optimization with varying similarity measures. | Michael R. Peterson, Travis E. Doom, Michael L. Raymer |
| 2005 | GECCO | GA-facilitated classifier optimization with varying similarity measures. | Michael R. Peterson, Travis E. Doom, Michael L. Raymer |
| 2004 | BIBE | Indexing Genomic Databases. | Gina Cooper, Michael L. Raymer, Travis E. Doom, Dan E. Krane, Natsuhiko Futamura |
| 2004 | GECCO | GA-Facilitated Knowledge Discovery and Pattern Recognition Optimization Applied to the Biochemistry of Protein Solvation. | Michael R. Peterson, Travis E. Doom, Michael L. Raymer |
| 2004 | SIGCSE | Bioinformatics in the undergraduate curriculum: opportunities for computer science educators. | Debra T. Burhans, Matt DeJongh, Travis E. Doom, Mark D. LeBlanc |
| 2002 | SIGCSE | A proposed undergraduate bioinformatics curriculum for computer scientists. | Travis E. Doom, Michael L. Raymer, Dan E. Krane, Oscar Garcia |
| 2001 | BIBE | PocketMol: A Molecular Visualization Tool for the PocketPC (short paper). | Jason R. Gilder, Michael L. Raymer, Travis E. Doom |
| 2001 | BIBE | Profile Combinatorics for Fragment Selection in Comparative Protein Structure Modeling. | Deacon J. Sweeney, Gerald M. Alter, Michael L. Raymer, Travis E. Doom |
| 2001 | ICCD | Efficient Algorithms for Subcircuit Enumeration and Classification for the Module Identification Problem. | Jennifer L. White, Moon-Jung Chung, Anthony S. Wojcik, Travis E. Doom |