| 1998 | A formally exact method to numerically analyze local denaturation in superhelical DNA. Richard M. Fye, Craig J. Benham |
| 1998 | A new method for modeling and solving the protein fold recognition problem (extended abstract). Ying Xu, Dong Xu, Edward C. Uberbacher |
| 1998 | A polyhedral approach to RNA sequence structure alignment. Hans-Peter Lenhof, Knut Reinert, Martin Vingron |
| 1998 | A self-consistent field optimization approach to build energetically and geometrically correct lattice models of proteins. Boris A. Reva, Alexei V. Finkelstein, Jeffrey Skolnick |
| 1998 | A structure based similarity measure for nucleic acid sequence comparison. Rongxiang Liu, Thomas W. Blackwell, David J. States |
| 1998 | A unified approach to word statistics. Mireille Régnier |
| 1998 | Algorithmic determination of core positions in the Israel M. Gelfand, Alexander Kister, Casimir A. Kulikowski, Ognyan Stoyanov |
| 1998 | Algorithms for optical mapping. Richard M. Karp, Ron Shamir |
| 1998 | Alignments without low-scoring regions. Zheng Zhang, Piotr Berman, Webb Miller |
| 1998 | An algorithm for finding novel gapped motifs in DNA sequences. Emily Rocke, Martin Tompa |
| 1998 | An algorithm for finding tandem repeats of unspecified pattern size. Gary Benson |
| 1998 | Analysis of the position dependent amino acid probabilities and its application to the search for remote homologues. Shamil R. Sunyaev, Igor V. Rodchenkov, Frank Eisenhaber, Eugene N. Kuznetsov |
| 1998 | Assessment of ab initio protein structure prediction. Arthur M. Lesk |
| 1998 | Better methods for solving parsimony and compatibility. Maria Luisa Bonet, Mike A. Steel, Tandy J. Warnow, Shibu Yooseph |
| 1998 | Beyond mutation matrices: physical-chemistry based evolutionary models. Jeffrey M. Koshi, David P. Mindell, Richard A. Goldstein |
| 1998 | Bridging the gap between sequence and structure (abstract). M. Levitt |
| 1998 | Challenges of biomolecular structure prediction (abstract). Ruben Abagyan |
| 1998 | Constructing maps using the span and inclusion relations. Daniel P. Fasulo, Tao Jiang, Richard M. Karp, Nitin Sharma |
| 1998 | Detecting non-adjoining correlations with signals in DNA. Pankaj Agarwal, Vineet Bafna |
| 1998 | Dynamic programming alignment accuracy. Ian Holmes, Richard Durbin |
| 1998 | Enhancements in sequence analysis with DNA arrays (abstract). Charles R. Cantor |
| 1998 | Estimation for restriction sites observed by optical mapping using reversible-jump Markov chain Monte Carlo. Jae Kyu Lee, Vlado Dancík, Michael S. Waterman |
| 1998 | Estimation of allele frequencies from color-multiplexed electropherograms. David G. Politte, David R. Maffitt, David J. States |
| 1998 | Evolutionary drug discovery (abstract). Klaus Gubernator |
| 1998 | Family-based homology detection via pairwise sequence comparison. William Noble Grundy |
| 1998 | From four-taxon trees to phylogenies (preliminary report): the case of mammalian evolution. Amir Ben-Dor, Benny Chor, Dan Graur, Ron Ophir, Dan Pelleg |
| 1998 | Genome analysis using clusters of orthologous groups (COGs). Eugene V. Koonin, Roman L. Tatusov, Michael Y. Galperin, Michael N. Rosanov |
| 1998 | How fast a protein chain can fold to its most stable structure? Alexei V. Finkelstein, Azat Ya. Badretdinov |
| 1998 | Identifying satellites in nucleic acid sequences. Marie-France Sagot, Eugene W. Myers |
| 1998 | Mass spectrometry and the proteome (abstract). John R. Yates III |
| 1998 | Maxwell demon and topology simplification by type II topoisomerases. Alexander Vologodskii |
| 1998 | Modeling DNA shuffling. Fengzhu Sun |
| 1998 | Motif discovery without alignment or enumeration (extended abstract). Isidore Rigoutsos, Aris Floratos |
| 1998 | Multiple genome rearrangements. David Sankoff, Mathieu Blanchette |
| 1998 | New approaches to genomic analysis using single molecules. David C. Schwartz, Thomas S. Anantharaman, C. Aston, Bud Mishra, V. Clarke, D. Gebauer, S. Delobette, E. Dimalanta, J. Edington, J. Evenzehav, J. Giacalone, C. Hiort, E. Huff, J. Jing, Z. Lai, E. Lee, J. Lin, B. Porter, R. Qi, Y. Skiadis |
| 1998 | On reconstructing species trees from gene trees in term of duplications and losses. Bin Ma, Ming Li, Louxin Zhang |
| 1998 | On the complexity of protein folding (abstract). Pierluigi Crescenzi, Deborah Goldman, Christos H. Papadimitriou, Antonio Piccolboni, Mihalis Yannakakis |
| 1998 | Optimal detection of sequence similarity by local alignment. Terence Hwa, Michael Lässig |
| 1998 | Partitioning Laxmi Parida, Bud Mishra |
| 1998 | Proceedings of the Second Annual International Conference on Research in Computational Molecular Biology, RECOMB 1998, New York, NY, USA, March 22-25, 1998 Sorin Istrail, Pavel A. Pevzner, Michael S. Waterman |
| 1998 | Protein folding in the hydrophobic-hydrophilic ( Bonnie Berger, Frank Thomson Leighton |
| 1998 | Regression analysis of multiple protein structures. Thomas D. Wu, Trevor Hastie, Scott C. Schmidler, Douglas L. Brutlag |
| 1998 | The hierarchical organization of molecular structure computations. Cheng Che Chen, Jaswinder Pal Singh, Russ B. Altman |
| 1998 | The human genetic variation (abstract): oligonucleotide chips and human disease. David R. Cox |
| 1998 | The ordinal quartet method. Paul E. Kearney |
| 1998 | The theoretical limits of DNA sequence discrimination of polyamides. Wynn L. Walker, David S. Goodsell, Elliot M. Landaw |