• GENIES: A Natural-Language Processing System for the Extraction of Molecular Pathways from Complete Journal Articles
  Carol Friedman, Pauline Kra, Michael Krauthammer, H. Yu, A. Rzhetsky

• Designing Better Phages
  Steven Skiena

• Identifying Splits with Clear Separation: A New Class Discovery Method for Gene Expression Data
  Anja von Heydebreck, Wolfgang Huber, Annemarie Poustka, M.Vingron

• CLIFF: Clustering of High-Dimensional Microarray Data via Iterative Feature Filtering Using Normalized Cuts
  Eric P. Xing, Richard M. Karp

• 0j.py: A Software Tool for Low Complexity Proteins and Protein Domains
  Michael J. Wise

• New Approaches for Reconstructing Phylogenies from Gene Order Data
  Bernard M.E. Moret, Li-San Wang, Tandy Warnow, Stacia K. Wyman

• Joint modeling of DNA sequence and physical properties to improve eukaryotic promoter recognition
  Uwe Ohler, Heinrich Niemann

• Separation of samples into their constituents using gene expression data
  David Venet, F. Pecasse, C. Maenhaut, H. Bersini,

• Computational Expansion of Genetic Networks
  Amos Tanay, Ron Shamir

• An Algorithm for Finding Signals of Unknown Length in DNA Sequences
  Giulio Pavesi, Giancarlo Mauri, Graziano Pesole

• Prediction of the Coupling Specificity of G Protein Coupled Receptors to their G Proteins
  Steffen Møller, Jaak Vilo, Michael D.R. Croning,

• Non-symmetric Score Matrices and the Detection of Homologous Transmembrane Proteins
  Tobias Mueller, Sven Rahmann, Marc Rehmsmeier

• Design of a compartmentalized shotgun assembler for the human genome
  Knut Reinert, Daniel H. Huson, Saul A. Kravitz, Karin A.Remington, Art L. Delcher, Ian M. Dew, Mike Flanigan,Aaron L. Halpern, Zhongwu Lai, Clark M. Mobarry, Granger G. Sutton, Eugene W. Myers

• Probabilistic Approaches to the Use of Higher Order Clone Relationships in Physical Map Assembly
  David J. States

• Promoter Prediction in the Human Genome
  Sridhar Hannenhalli, Samuel Levy

• Molecular classification of multiple tumor types
  Chen-Hsiang Yeang, Sridhar Ramaswamy, Pablo Tamayo, S. Mukherjee Ryan M. Rifkin, Jill P. Mesirov, Todd Golub, Michael Angelo, Michael Reich, Eric Lander, Tomaso Poggio

• Separating real motifs from their artifacts
  Mathieu Blanchette, Saurabh Sinha

• Fast Optimal Leaf Ordering for Hierarchical Clustering
  Ziv Bar-Joseph, David K. Gifford, Tommi S. Jaakkola

• Gene recognition based on DAG shortest paths
  Dan Roth, John S. Chuang

• A probabilistic model for scoring tandem mass spectra against a peptide database.
  Vineet Bafna, Nathan Edwards

• Using mixtures of common ancestors for estimating the probabilities of discrete events in biological sequences
  Eleazar Eskin, William Noble Grundy, Yoram Singer

• Centralization: A biologically sensible method for the normalization of gene expression data
  Alexander Zien, Thomas Aigner, Ralf Zimmer, Thomas Lengauer

• Protein-protein interaction map inference using Interacting Domain Profile Pairs
  Jérôme Wojcik, Vincent Schachter

• Insights into Domain Combinations
  Gordana Apic, Julian Gough, Sarah Teichmann

• Integrating Genomic Homology into Gene Structure Prediction
  Michael R. Brent, Ian Korf, Paul Flicek, Daniel Duan

• Designing Fast Converging Phylogenetic Methods
  Usman Roshan,Luay Nakhleh, Katherine St. John, Jerry Sun, Tandy Warnow

• Fragment Assembly with Double-Barreled Data
  Haixu Tang, Pavel A. Pevzner

• Discovery of Regulatory Elements from Microarray Data Using Genome Mean Expression Profiles
  Michael B. Eisen, Derek Y. Chiang, Patrick O. Brown

• Rich Probabilistic Models for Gene Expression
  Eran Segal, Ben Taskar, Audrey Gasch, Nir Friedman, Daphne Koller

• Probe Selection Algorithms with Applications in the Analysis of Microbial Communities
  James Borneman, Marek Chrobak, Gianluca Della Vedova, Andres Figueroa, Tao Jiang

• Probabilistic Divergence Measures for Detecting Interspecies Recombination
  Dirk Husmeier, Frank Wright

• Generating Protein Interaction Maps from Incomplete Data : Application to Fold Assignment
  Michael Lappe, Jong Park, Oliver Niggemann, Liisa Holm

• Feature selection for DNA methylation based cancer classification
  Fabian Model, Peter Adorjan, Alexander Olek, Christian Piepenbrock

• Inferring Subnetworks from Perturbed Expression Profiles
  Dana Pe'er,Aviv Regev, Gal Elidan, Nir Friedman

• GEST: A Gene Expression Search Tool Based on a Novel Bayesian Similarity Metric
  Ronald Taylor, Lawrence Hunter, Sonia M. Leach, Richard Simon

• An Efficient Algorithm for Finding Short Approximate Non-Tandem Repeats
  Ezekiel F. Adebiyi, Tao Jiang, Michael Kaufmann

• Improved Prediction of the Number of Residue Contacts in Proteins by Recurrent Neural Networks
  Pierre Baldi, Gianluca Pollastri, Pietro Fariselli, Rita Casadio

• Disambiguating Proteins, Genes, and RNA in Text: A Machine Learning Approach
  Vasileios Hatzivassiloglou, Pablo A. Duboue, Andrey Rzhetsky

All questions regarding papers should be addressed to Anders Gorm Pedersen: