| 2002 | Exact genetic linkage computations for general pedigrees. | Mayan Fishelson, Dan Geiger |
| 2002 | Microarray synthesis through multiple-use PCR primer design. | Rohan J. Fernandes, Steven Skiena |
| 2002 | Efficiently detecting polymorphisms during the fragment assembly process. | Daniel P. Fasulo, Aaron L. Halpern, Ian M. Dew, Clark M. Mobarry |
| 2002 | Finding composite regulatory patterns in DNA sequences. | Eleazar Eskin, Pavel A. Pevzner |
| 2002 | A variance-stabilizing transformation for gene-expression microarray data. | Blythe Durbin, Johanna S. Hardin, Douglas M. Hawkins, David M. Rocke |
| 2002 | Fully automated ab initio protein structure prediction using I-STES, HMMSTR and ROSETTA. | Chris Bystroff, Yu Shao |
| 2001 | Centralization: a new method for the normalization of gene expression data. | Alexander Zien, Thomas Aigner, Ralf Zimmer, Thomas Lengauer |
| 2001 | Molecular classification of multiple tumor types. | Chen-Hsiang Yeang, Sridhar Ramaswamy, Pablo Tamayo, Sayan Mukherjee, Ryan M. Rifkin, Michael Angelo, Michael Reich, Eric S. Lander, Jill P. Mesirov, Todd R. Golub |
| 2001 | CLIFF: clustering of high-dimensional microarray data via iterative feature filtering using normalized cuts. | Eric P. Xing, Richard M. Karp |
| 2001 | Protein-protein interaction map inference using interacting domain profile pairs. | Jrme Wojcik, Vincent Schchter |
| 2001 | 0j.py: a software tool for low complexity proteins and protein domains. | Michael J. Wise |
| 2001 | Separation of samples into their constituents using gene expression data. | David Venet, F. Pecasse, C. Maenhaut, Hugues Bersini |
| 2001 | Computational expansion of genetic networks. | Amos Tanay, Ron Shamir |
| 2001 | Probabilistic approaches to the use of higher order clone relationships in physical map assembly. | David J. States, Volker Nowotny, Thomas W. Blackwell |
| 2001 | Designing better phages. | Steven Skiena |
| 2001 | Rich probabilistic models for gene expression. | Eran Segal, Benjamin Taskar, Audrey P. Gasch, Nir Friedman, Daphne Koller |
| 2001 | Improved prediction of the number of residue contacts in proteins by recurrent neural networks. | Gianluca Pollastri, Pierre Baldi, Piero Fariselli, Rita Casadio |
| 2001 | Fragment assembly with double-barreled data. | Pavel A. Pevzner, Haixu Tang |
| 2001 | Inferring subnetworks from perturbed expression profiles. | Dana Pe'er, Aviv Regev, Gal Elidan, Nir Friedman |
| 2001 | An algorithm for finding signals of unknown length in DNA sequences. | Giulio Pavesi, Giancarlo Mauri, Graziano Pesole |
| 2001 | Joint modeling of DNA sequence and physical properties to improve eukaryotic promoter recognition. | Uwe Ohler, Heinrich Niemann, Guo-chun Liao, Gerald M. Rubin |
| 2001 | Designing fast converging phylogenetic methods. | Luay Nakhleh, Usman Roshan, Katherine St. John, Jerry Sun, Tandy J. Warnow |
| 2001 | Non-symmetric score matrices and the detection of homologous transmembrane proteins. | Tobias Mller, Sven Rahmann, Marc Rehmsmeier |
| 2001 | New approaches for reconstructing phylogenies from gene order data. | Bernard M. E. Moret, Li-San Wang, Tandy J. Warnow, Stacia K. Wyman |
| 2001 | Prediction of the coupling specificity of G protein coupled receptors to their G proteins. | Steffen Mller, Jaak Vilo, Michael D. R. Croning |