| 1999 | Multiple Structural Alignment and Core Detection by Geometric Hashing. | Nathaniel Leibowitz, Zipora Y. Fligelman, Ruth Nussinov, Haim J. Wolfson |
| 1999 | An Algorithm Combining Discrete and Continuous Methods for Optical Mapping. | Richard M. Karp, Itsik Pe'er, Ron Shamir |
| 1999 | Using the Fisher Kernel Method to Detect Remote Protein Homologies. | Tommi S. Jaakkola, Mark Diekhans, David Haussler |
| 1999 | ESTScan: A Program for Detecting, Evaluating, and Reconstructing Potential Coding Regions in EST Sequences. | Christian Iseli, C. Victor Jongeneel, Philipp Bucher |
| 1999 | TEXTAL: A Pattern Recognition System for Interpreting Electron Density Maps. | Thomas R. Ioerger, Thomas Holton, Jon A. Christopher, James C. Sacchettini |
| 1999 | Solving Large Scale Phylogenetic Problems using DCM2. | Daniel H. Huson, Lisa Vawter, Tandy J. Warnow |
| 1999 | Fidelity Probes for DNA Arrays. | Earl Hubbell, Pavel A. Pevzner |
| 1999 | Protein Fold Class Prediction: New Methods of Statistical Classification. | Janet Grassmann, Martin Reczko, Sndor Suhai, Lutz Edler |
| 1999 | Using Sequence Motifs for Enhanced Neural Network Prediction of Protein Distance Constraints. | Jan Gorodkin, Ole Lund, Claus A. F. Andersen, Sren Brunak |
| 1999 | INTERACT: An Object Oriented Protein-Protein Interaction Database. | Karen Eilbeck, Andy Brass, Norman W. Paton, Charlie Hodgman |
| 1999 | Constructing Biological Knowledge Bases by Extracting Information from Text Sources. | Mark Craven, Johan Kumlien |
| 1999 | A Data Base of Minimally Frustrated Alpha-Helical Segments Extracted from Proteins According to an Entropy Criterion. | Rita Casadio, Mario Compiani, Piero Fariselli, Pier Luigi Martelli |
| 1999 | Automatic Extraction of Biological Information from Scientific Text: Protein-Protein Interactions. | Christian Blaschke, Miguel A. Andrade, Christos A. Ouzounis, Alfonso Valencia |
| 1999 | Identity by Descent Genome Segmentation Based on Single Nucleotide Polymorphism Distributions. | Thomas W. Blackwell, Eric C. Rouchka, David J. States |
| 1999 | Reconstructing the Duplication History of a Tandem Repeat. | Gary Benson, Lan Dong |
| 1999 | Nearest Neighbor Classification in 3D Protein Databases. | Mihael Ankerst, Gabi Kastenmller, Hans-Peter Kriegel, Thomas Seidl |
| 1999 | Position-Specific Annotation of Protein Function Based on Multiple Homologs. | Miguel A. Andrade |
| 1999 | Genomics via Optical Mapping III: Contiging Genomic DNA. | Thomas S. Anantharaman, Bud Mishra, David C. Schwartz |
| 1999 | A Phylogenetic Approach to RNA Structure Prediction. | Viatcheslav R. Akmaev, Scott T. Kelley, Gary D. Stormo |
| 1999 | Crystallographic Threading. | Alan Ableson, Janice I. Glasgow |
| 1998 | A Map of the Protein Space: An Automatic Hierarchical Classification of all Protein Sequences. | Golan Yona, Nathan Linial, Naftali Tishby, Michal Linial |
| 1998 | Automated Clustering and Assembly of Large EST Collections. | David P. Yee, Darrell Conklin |
| 1998 | Genetic Algorithms for Protein Threading. | Jacqueline Yadgari, Amihood Amir, Ron Unger |
| 1998 | A Computational System for Modeling Flexible Protein-Protein and protein-DNA Docking. | Michael J. E. Sternberg, Patrick Aloy, Henry A. Gabb, Richard M. Jackson, Gidon Moont, Enrique Querol, Francesc X. Avils |
| 1998 | A Hidden Markov Model for Predicting Transmembrane Helices in Protein Sequences. | Erik L. L. Sonnhammer, Gunnar von Heijne, Anders Krogh |