| 1997 | Fast and numerically stable parametric alignment of biosequences. | Ralf Zimmer, Thomas Lengauer |
| 1997 | Aligning a DNA sequence with a protein sequence. | Zheng Zhang, William R. Pearson, Webb Miller |
| 1997 | Reference-based gene model prediction on DNA contigs (extended abstract). | Ying Xu, Edward C. Uberbacher |
| 1997 | Beyond islands (extended abstract): runs in clone-probe matrices. | David Bruce Wilson, David S. Greenberg, Cynthia A. Phillips |
| 1997 | A more efficient approximation scheme for tree alignment. | Lusheng Wang, Tao Jiang, Dan Gusfield |
| 1997 | Las Vegas algorithms for gene recognition: suboptimal and error-tolerant spliced alignment. | Sing-Hoi Sze, Pavel A. Pevzner |
| 1997 | Pooling strategies for establishing physical genome maps using FISH. | Fengzhu Sun, Gary Benson, Norman Arnheim, Michael S. Waterman |
| 1997 | Variations on a theme of Lander and Waterman (abstract). | Terence P. Speed |
| 1997 | The threading approach to the inverse protein folding problem. | Temple F. Smith, Loredana Lo Conte, Jadwiga R. Bienkowska, Robert G. Rogers, Chrysanthe Gaitatzes, Richard H. Lathrop |
| 1997 | Building human genome maps with radiation hybrids. | Donna K. Slonim, Leonid Kruglyak, Lincoln Stein, Eric S. Lander |
| 1997 | New flexible approaches for multiple sequence alignment. | Tetsuo Shibuya, Hiroshi Imai |
| 1997 | The deferred path heuristic for the generalized tree alignment problem. | Benno Schwikowski, Martin Vingron |
| 1997 | Conserved segment identification. | David Sankoff, Vincent Ferretti, Joseph H. Nadeau |
| 1997 | Hunting for new restriction enzymes in GenBank (abstract). | Richard J. Roberts |
| 1997 | A branch-and-cut algorithm for multiple sequence alignment. | Knut Reinert, Hans-Peter Lenhof, Petra Mutzel, Kurt Mehlhorn, John D. Kececioglu |
| 1997 | Improved splice site detection in Genie. | Martin G. Reese, Frank H. Eeckman, David Kulp, David Haussler |
| 1997 | Simulating Boolean circuits on a DNA computer. | Mitsunori Ogihara, Animesh Ray |
| 1997 | Progressive multiple alignment with constraints. | Gene Myers, Sanford Selznick, Zheng Zhang, Webb Miller |
| 1997 | Towards constructing physical maps by optical mapping (extended abstract): an effective, simple, combinatorial approach. | S. Muthukrishnan, Laxmi Parida |
| 1997 | Supervised learning of hidden Markov models for sequence discrimination. | Hiroshi Mamitsuka |
| 1997 | DNA probe arrays - accessing the genome (abstract). | Robert J. Lipshutz |
| 1997 | An algorithm for haplotype analysis. | Shili Lin, Terence P. Speed |
| 1997 | New contact measures for the protein docking problem. | Hans-Peter Lenhof |
| 1997 | Chimeric alignment by dynamic programming: algorithm and biological uses. | George A. Komatsoulis, Michael S. Waterman |
| 1997 | Problems in understanding the structure and assembly of viruses (abstract). | Johnathan King |