| 2003 | Efficient Generation of Uniform Samples from Phylogenetic Trees. | Paul E. Kearney, J. Ian Munro, Derek Phillips |
| 2003 | A Stochastic Approach to Count RNA Molecules Using DNA Sequencing Methods. | Boris Hollas, Rainer Schuler |
| 2003 | Consensus Networks: A Method for Visualising Incompatibilities in Collections of Trees. | Barbara R. Holland, Vincent Moulton |
| 2003 | Better Hill-Climbing Searches for Parsimony. | Ganeshkumar Ganapathy, Vijaya Ramachandran, Tandy J. Warnow |
| 2003 | A Large Version of the Small Parsimony Problem. | Jakob Fredslund, Jotun Hein, Tejs Scharling |
| 2003 | A Combinatorial Approach to Automatic Discovery of Cluster-Patterns. | Revital Eres, Gad M. Landau, Laxmi Parida |
| 2003 | Minimum Recombiant Haplotype Configuration on Tree Pedigrees. | Koichiro Doi, Jing Li, Tao Jiang |
| 2003 | Common Intervals of Two Sequences. | Gilles Didier |
| 2003 | A Systematic Statistical Analysis of Ion Trap Tandem Mass Spectra in View of Peptide Scoring. | Jacques Colinge, Alexandre Masselot, Jrme Magnin |
| 2003 | Noisy Data Make the Partial Digest Problem NP-hard. | Mark Cieliebak, Stephan J. Eidenbenz, Paolo Penna |
| 2003 | Distance Corrections on Recombinant Sequences. | David Bryant, Daniel H. Huson, Tobias H. Klpper, Kay Nieselt-Struwe |
| 2003 | Computing Refined Buneman Trees in Cubic Time. | Gerth Stlting Brodal, Rolf Fagerberg, Anna stlin, Christian N. S. Pedersen, S. Srinivasa Rao |
| 2003 | Optimal DNA Signal Recognition Models with a Fixed Amount of Intrasignal Dependency. | Brona Brejov, Daniel G. Brown, Toms Vinar |
| 2003 | Vector Seeds: An Extension to Spaced Seeds Allows Substantial Improvements in Sensitivity and Specifity. | Brona Brejov, Daniel G. Brown, Toms Vinar |
| 2003 | A Method to Detect Gene Structure and Alternative Splice Sites by Agreeing ESTs to a Genomic Sequence. | Paola Bonizzoni, Graziano Pesole, Raffaella Rizzi |
| 2003 | New Efficient Algorithm for Detection of Horizontal Gene Transfer Events. | Alix Boc, Vladimir Makarenkov |
| 2003 | Sequencing from Compomers: Using Mass Spectrometry for DNA De-Novo Sequencing of 200+ nt. | Sebastian Bcker |
| 2003 | New Algorithm for the Simplified Partial Digest Problem. | Jacek Blazewicz, Marcin Jaroszewski |
| 2003 | Composition Alignment. | Gary Benson |
| 2003 | Designing Optimally Multiplexed SNP Genotyping Assays. | Yonatan Aumann, Efrat Manisterski, Zohar Yakhini |
| 2003 | A Linear-Time Majority Tree Algorithm. | Nina Amenta, Frederick Clarke, Katherine St. John |
| 2003 | Ancestral Maximum Likelihood of Evolutionary Trees Is Hard. | Louigi Addario-Berry, Benny Chor, Michael T. Hallett, Jens Lagergren, Alessandro Panconesi, Todd Wareham |
| 2003 | A Local Chaining Algorithm and Its Applications in Comparative Genomics. | Mohamed Ibrahim Abouelhoda, Enno Ohlebusch |
| 2002 | Efficient Methods for Inferring Tandem Duplication History. | Louxin Zhang, Bin Ma, Lusheng Wang |
| 2002 | A Method of Consolidating and Combining EST and mRNA Alignments to a Genome to Enumerate Supported Splice Variants. | Raymond Wheeler |