| 2002 | Proteins: Structure, Function and Evolution - Session Introduction. | Peter Clote, Gavin J. P. Naylor, Ziheng Yang |
| 2002 | Structure-Based Comparison of Four Eukaryotic Genomes. | Melissa S. Cline, Guoying Liu, Ann E. Loraine, Ron Shigeta, Jill Cheng, Gangwu Mei, David Kulp, Michael A. Siani-Rose |
| 2002 | Scoring Pairwise Genomic Sequence Alignments. | Francesca Chiaromonte, V. B. Yap, W. Miller |
| 2002 | Glycosylation of Proteins: A Computer Based Method for the Rapid Exploration of Comformational Space of N-Glycans. | Andreas Bohne, Claus-Wilhelm von der Lieth |
| 2002 | A Stability Based Method for Discovering Structure in Clustered Data. | Asa Ben-Hur, Andr Elisseeff, Isabelle Guyon |
| 2002 | Preface. | Russ B. Altman, A. Keith Dunker, Lawrence Hunter, Teri E. Klein |
| 2001 | Simulating the Growth of Viruses. | Lingchong You, John Yin |
| 2001 | Maximum Likelihood Analysis of Adaptive Evolution in HIV-1 Gp120 env Gene. | Ziheng Yang |
| 2001 | Event Extraction from Biomedical Papers Using a Full Parser. | Akane Yakushiji, Yuka Tateisi, Yusuke Miyao, Jun'ichi Tsujii |
| 2001 | Preface. | |
| 2001 | PIES, A Protein Interaction Extraction System. | Limsoon Wong |
| 2001 | The Protein Non-Folding Problem: Amino Acid Determinants of Intrinsic Order and Disorder. | R. M. Williams, Zoran Obradovic, V. Mathura, W. Braun, E. C. Garner, J. Young, S. Takayama, Celeste J. Brown, A. Keith Dunker |
| 2001 | A Comparison of Genetic Network Models. | Lodewyk F. A. Wessels, Eugene P. van Someren, Marcel J. T. Reinders |
| 2001 | Using Metacomputing Tools to Facilitate Large Scale Analyses of Biological Databases. | Allison Waugh, Glenn A. Williams, Liping Wei, Russ B. Altman |
| 2001 | Human Genome Variation: Linking Genotypes to Clinical Phenotypes - Session Introduction. | Francisco M. de la Vega, Martin Kreitman, Isaac S. Kohane |
| 2001 | Natural Language Processing for Biology - Session Introduction. | Jun'ichi Tsujii, Limsoon Wong |
| 2001 | On Reporting Fold Differences. | Christine L. Tsien, T. A. Libermann, X. Gu, Isaac S. Kohane |
| 2001 | A Model for Phylogenetic Inference Using Structural and Chemical Covariates. | Simon Tavar, Dean C. Adams, Olivier Fedrigo, Gavin J. P. Naylor |
| 2001 | Detecting Gene Relations from MEDLINE Abstracts. | Matthew J. Stephens, Mathew J. Palakal, Snehasis Mukhopadhyay, Rajeev R. Raje, Javed Mostafa |
| 2001 | Efficiencies of Genes and Accuracy of Tree-Building Methods in Recovering a Known Drosophila Genealogy. | Jennifer E. Steinbachs, Nikolaos V. Schizas, J. W. O. Ballard |
| 2001 | Phylogenetics in the Post-Genomic Era - Session Introduction. | Jennifer E. Steinbachs, Paul E. Kearney |
| 2001 | Quality Control in Manufacturing Oligo Arrays: A Combinatorial Design Approach. | Rimli Sengupta, Martin Tompa |
| 2001 | Percolation Clustering: A Novel Algorithm Applied to the Clustering of Gene Expression Patterns in Dictyostelium Development. | Roman Ssik, Terence Hwa, N. Iranfar, W. F. Loomis |
| 2001 | Markov Chain Monte Carlo Computation of Confidence Intervals for Substitution-Rate Variation in Proteins. | Andrey Rzhetsky, Pavel Morozov |
| 2001 | Nutrition-Related Analysis of Pathway/Genome Databases. | Pedro Romero, Peter D. Karp |