| 2011 | FPGA | FPGA-based fine-grain parallel computing (abstract only). | Andrew W. Hill, Andrea Di Blas, Richard Hughey |
| 2003 | ARITH | A New Iterative Structure for Hardware Division: The Parallel Paths Algorithm. | Eric Rice, Richard Hughey |
| 2001 | PSB | High Performance Computing for Computational Biology - Session Introduction. | Thomas E. Ferrin, Bruce A. Foster, Richard Hughey |
| 2001 | PSB | Sequence Analysis With the Kestrel SIMD Parallel Processor. | Leslie Grate, Mark Diekhans, David M. Dahle, Richard Hughey |
| 2001 | PSB | Molecular Fingerprinting on the SIMD Parallel Processor Kestrel. | Eric Rice, Richard Hughey |
| 1999 | PDPTA | The UCSC Kestrel General Purpose Parallel Processor. | David M. Dahle, Leslie Grate, Eric Rice, Richard Hughey |
| 1997 | ARITH | Multiprecision Division on an 8-bit Processor. | Eric Rice, Richard Hughey |
| 1995 | ISMB | Parallel Sequence Alignment in Limited Space. | J. Alicia Grice, Richard Hughey, Don Speck |
| 1994 | CPM | Recent Methods for RNA Modeling Using Stochastic Context-Free Grammars. | Yasubumi Sakakibara, Michael Brown, Richard Hughey, I. Saira Mian, Kimmen Sjlander, Rebecca C. Underwood, David Haussler |
| 1994 | ISMB | RNA Modeling Using Gibbs Sampling and Stochastic Context Free Grammars. | Leslie Grate, Mark Herbster, Richard Hughey, David Haussler, I. Saira Mian, Harry Noller |
| 1993 | ISMB | Using Dirichlet Mixture Priors to Derive Hidden Markov Models for Protein Families. | Michael Brown, Richard Hughey, Anders Krogh, I. Saira Mian, Kimmen Sjlander, David Haussler |
| 1991 | ICPP | B-SYS: A 470-Processor Programmable Systolic Array. | Richard Hughey, Daniel P. Lopresti |