| 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 | A Dataset Generator for Whole Genome Shotgun Sequencing. Gene Myers |
| 1999 | A Linear Time Algorithm for Finding All Maximal Scoring Subsequences. Walter L. Ruzzo, Martin Tompa |
| 1999 | A Motion Planning Approach to Flexible Ligand Binding. Amit Pal Singh, Jean-Claude Latombe, Douglas L. Brutlag |
| 1999 | A Phylogenetic Approach to RNA Structure Prediction. Viatcheslav R. Akmaev, Scott T. Kelley, Gary D. Stormo |
| 1999 | An Algorithm Combining Discrete and Continuous Methods for Optical Mapping. Richard M. Karp, Itsik Pe'er, Ron Shamir |
| 1999 | An Exact Method for Finding Short Motifs in Sequences, with Application to the Ribosome Binding Site Problem. Martin Tompa |
| 1999 | Analysis of Ribosomal RNA Sequences by Combinatorial Clustering. Poe Xing, Casimir A. Kulikowski, Ilya B. Muchnik, Inna Dubchak, Denise M. Wolf, Sylvia Spengler, Manfred Zorn |
| 1999 | Automatic Extraction of Biological Information from Scientific Text: Protein-Protein Interactions. Christian Blaschke, Miguel A. Andrade, Christos A. Ouzounis, Alfonso Valencia |
| 1999 | Building Dictionaries of 1D and 3D Motifs by Mining the Unaligned 1D Sequences of 17 Archaeal and Bacterial Genomes. Isidore Rigoutsos, Yuan Gao, Aris Floratos, Laxmi Parida |
| 1999 | Constructing Biological Knowledge Bases by Extracting Information from Text Sources. Mark Craven, Johan Kumlien |
| 1999 | Crystallographic Threading. Alan Ableson, Janice I. Glasgow |
| 1999 | Database Screening for HIV Protease Ligands: The Influence of Binding-Site Conformation and Representation on Ligand Selectivity. Volker Schnecke, Leslie A. Kuhn |
| 1999 | Database Search Based on Bayesian Alignment. Jun Zhu, Roland Lüthy, Charles E. Lawrence |
| 1999 | ESTScan: A Program for Detecting, Evaluating, and Reconstructing Potential Coding Regions in EST Sequences. Christian Iseli, C. Victor Jongeneel, Philipp Bucher |
| 1999 | Fidelity Probes for DNA Arrays. Earl Hubbell, Pavel A. Pevzner |
| 1999 | Genomics via Optical Mapping III: Contiging Genomic DNA. Thomas S. Anantharaman, Bud Mishra, David C. Schwartz |
| 1999 | INTERACT: An Object Oriented Protein-Protein Interaction Database. Karen Eilbeck, Andy Brass, Norman W. Paton, Charlie Hodgman |
| 1999 | Identity by Descent Genome Segmentation Based on Single Nucleotide Polymorphism Distributions. Thomas W. Blackwell, Eric C. Rouchka, David J. States |
| 1999 | Metrics and Similarity Measures for Hidden Markov Models. Rune B. Lyngsø, Christian N. S. Pedersen, Henrik Nielsen |
| 1999 | Multiple Structural Alignment and Core Detection by Geometric Hashing. Nathaniel Leibowitz, Zipora Y. Fligelman, Ruth Nussinov, Haim J. Wolfson |
| 1999 | Nearest Neighbor Classification in 3D Protein Databases. Mihael Ankerst, Gabi Kastenmüller, Hans-Peter Kriegel, Thomas Seidl |
| 1999 | Pharmaceutical Target Discovery Using Guilt-by-Association: Schizophrenia and Parkinson's Disease Genes. Michael G. Walker, Wayne Volkmuth, Tod M. Klingler |
| 1999 | Position-Specific Annotation of Protein Function Based on Multiple Homologs. Miguel A. Andrade |
| 1999 | Proceedings of the Seventh International Conference on Intelligent Systems for Molecular Biology, August 6-10, 1999, Heidelberg, Germany Thomas Lengauer, Reinhard Schneider, Peer Bork, Douglas L. Brutlag, Janice I. Glasgow, Hans-Werner Mewes, Ralf Zimmer |
| 1999 | Protein Fold Class Prediction: New Methods of Statistical Classification. Janet Grassmann, Martin Reczko, Sándor Suhai, Lutz Edler |
| 1999 | Quantitative, Scalable Discrete-Event Simulation of Metabolic Pathways. Peter A. Meric, Michael J. Wise |
| 1999 | Rapid Assessment of Extremal Statistics for Gapped Local Alignment. Rolf Olsen, Ralf Bundschuh, Terence Hwa |
| 1999 | Reconstructing the Duplication History of a Tandem Repeat. Gary Benson, Lan Dong |
| 1999 | Seamless Integration of Biological Applications within a Database Framework. Thodoros Topaloglou, Anthony Kosky, Victor M. Markowitz |
| 1999 | Solving Large Scale Phylogenetic Problems using DCM2. Daniel H. Huson, Lisa Vawter, Tandy J. Warnow |
| 1999 | Spatio-Temporal Registration of the Expression Patterns of Drosophila Segmentation Genes. Ekaterina M. Myasnikova, David Kosman, John Reinitz, Maria Samsonova |
| 1999 | TEXTAL: A Pattern Recognition System for Interpreting Electron Density Maps. Thomas R. Ioerger, Thomas Holton, Jon A. Christopher, James C. Sacchettini |
| 1999 | Using Sequence Motifs for Enhanced Neural Network Prediction of Protein Distance Constraints. Jan Gorodkin, Ole Lund, Claus A. F. Andersen, Søren Brunak |
| 1999 | Using the Fisher Kernel Method to Detect Remote Protein Homologies. Tommi S. Jaakkola, Mark Diekhans, David Haussler |