| 2003 | MASS: multiple structural alignment by secondary structures. | Oranit Dror, Hadar Benyamini, Ruth Nussinov, Haim J. Wolfson |
| 2003 | Combining NLP and probabilistic categorisation for document and term selection for Swiss-Prot medical annotation. | Pavel B. Dobrokhotov, Cyril Goutte, Anne-Lise Veuthey, ric Gaussier |
| 2003 | Combining multiple microarray studies and modeling interstudy variation. | Jung Kyoon Choi, Ungsik Yu, Sangsoo Kim, Ook Joon Yoo |
| 2003 | PSI: indexing protein structures for fast similarity search. | Orhan amoglu, Tamer Kahveci, Ambuj K. Singh |
| 2003 | Fast identification and statistical evaluation of segmental homologies in comparative maps. | Peter P. Calabrese, Sugata Chakravarty, Todd J. Vision |
| 2003 | Stochastic modeling of RNA pseudoknotted structures: a grammatical approach. | Liming Cai, Russell L. Malmberg, Yunzhou Wu |
| 2003 | Linking genotype to phenotype: the International Rice Information System (IRIS). | Richard M. Bruskiewich, Alexander B. Cosico, William Eusebio, Arllet M. Portugal, Luralyn M. Ramos, Ma. Teresa Reyes, May Ann B. Sallan, Victor Jun M. Ulat, Xusheng Wang, Kenneth L. McNally, Ruaraidh Sackville Hamilton, Christopher Graham McLaren |
| 2003 | Glocal alignment: finding rearrangements during alignment. | Michael Brudno, Sanket Malde, Alexander Poliakov, Chuong B. Do, Olivier Couronne, Inna Dubchak, Serafim Batzoglou |
| 2003 | Predicting bacterial transcription units using sequence and expression data. | Joseph Bockhorst, Yu Qiu, Jeremy D. Glasner, Mingzhu Liu, Frederick R. Blattner, Mark Craven |
| 2003 | SNP and mutation discovery using base-specific cleavage and MALDI-TOF mass spectrometry. | Sebastian Bcker |
| 2003 | Remote homology detection: a motif based approach. | Asa Ben-Hur, Douglas L. Brutlag |
| 2003 | Methods for optimizing antiviral combination therapies. | Niko Beerenwinkel, Thomas Lengauer, Martin Dumer, Rolf Kaiser, Hauke Walter, Klaus Korn, Daniel Hoffmann, Joachim Selbig |
| 2003 | Bayesian gene/species tree reconciliation and orthology analysis using MCMC. | Lars Arvestad, Ann-Charlotte Berglund, Jens Lagergren, Bengt Sennblad |
| 2002 | The POPPs: clustering and searching using peptide probability profiles. | Michael J. Wise |
| 2002 | A tree kernel to analyse phylogenetic profiles. | Jean-Philippe Vert |
| 2002 | Marginalized kernels for biological sequences. | Koji Tsuda, Taishin Kin, Kiyoshi Asai |
| 2002 | Evaluating machine learning approaches for aiding probe selection for gene-expression arrays. | J. B. Tobler, Michael Molla, Emile F. Nuwaysir, R. D. Green, Jude W. Shavlik |
| 2002 | Identifying operons and untranslated regions of transcripts using Escherichia coli RNA expression analysis. | Brian Tjaden, David R. Haynor, Sergey Stolyar, Carsten Rosenow, Eugene Kolker |
| 2002 | Discovering statistically significant biclusters in gene expression data. | Amos Tanay, Roded Sharan, Ron Shamir |
| 2002 | Binary tree-structured vector quantization approach to clustering and visualizing microarray data. | Mujahid Sultan, Dennis A. Wigle, Christian A. Cumbaa, Marlena Maziarz, Janice I. Glasgow, Ming-Sound Tsao, Igor Jurisica |
| 2002 | Statistically based postprocessing of phylogenetic analysis by clustering. | Cara Stockham, Li-San Wang, Tandy J. Warnow |
| 2002 | DNA sequence and structure: direct and indirect recognition in protein-DNA binding. | Nicholas R. Steffen, S. D. Murphy, L. Tolleri, G. Wesley Hatfield, Richard H. Lathrop |
| 2002 | Evaluating functional network inference using simulations of complex biological systems. | V. Anne Smith, Erich D. Jarvis, Alexander J. Hartemink |
| 2002 | The metric space of proteins-comparative study of clustering algorithms. | Ori Sasson, Nathan Linial, Michal Linial |
| 2002 | Representing genetic sequence data for pharmacogenomics: an evolutionary approach using ontological and relational models. | Daniel L. Rubin, Farhad Shafa, Diane E. Oliver, Micheal Hewett, Russ B. Altman |