List of accepted papers
Long Papers
Christof Winter, Thorsten Baust, Bernard Hoflack and Michael Schroeder
A novel, comprehensive method to detect and
predict protein-protein interactions applied to the study of vesicular
trafficking
Markus Heinonen, Ari Rantanen, Taneli Mielikäinen, Esa
Pitkänen, Juha Kokkonen, Juho Rousu
Ab Initio Prediction of Molecular Fragments from
Tandem Mass Spectrometry
Claudio Lottaz, Joern Toedling and Rainer Spang
Annotation-based Distance Measures for Patient
Subgroup Discovery in Clinical Microarray Studies
Robert Michael Küffner, Timo Duchrow, Katrin Fundel, Ralf Zimmer
Characterization of Protein Interactions
Samatha Kottha and Michael Schroeder
Classifying permanent and transient protein
interactions
Axel Mosig, Ivo L. Hofacker, Peter F. Stadler
Comparative Analysis of Cyclic Sequences: Viroids
and other Small Circular RNAs
Matthias E. Futschik, Gautam Chaurasia, Erich Wanker und Hanspeter
Herzel
Comparison of Human Protein-Protein Interaction
Maps
Andreas Schlicker, Carola Huthmacher, Fidel Ramirez, Thomas Lengauer,
und Mario Albrecht
Functional evaluation of predicted domain-domain
interactions and human protein interaction networks
Sergio A. de Carvalho Jr. and Sven Rahmann
Microarray Layout as Quadratic Assignment Problem
Thomas Hamborg, Jürgen Kleffe
MPI-ClustDB: A fast String Matching Strategy
utilizing Parallel Computing
Gunnar Rätsch, Bettina Hepp, Uta Schulze, Cheng Soon Ong
PALMA: Perfect Alignments using Large Margin
Algorithms
Stefan Canzar, Jan Remy
Shape Distributions and Protein Similarity
Short Papers
Jörg Hakenberg, Conrad Plake, Torsten Schiemann, Ulf Leser
Ali Baba - Accessing PubMed using graphs
Yvonne Pöschl, Christoph Böttcher, Stephan Clemens, Dierk
Scheel, Stefan Posch, Steffen Neumann
Analysis of Metabolite relations in LCMS data
using Bayesian Networks
Axel Griewel, Matthias Rarey
Computational Macromolecular Assembly: A Geometric
Hashing Approach
David Halpern, Helene Chiapello, Stephane Robin, Sophie Schbath and
Meriem El Karoui
Determination of the mosaic structure of bacterial
chromosomes and application to prediction of short motifs involved in
DNA repair
Iris Antes, Shirley W.I. Siu, Thomas Lengauer
DynaPred: A combined structure and sequence based
method for the prediction of MHC class I binding peptide sequences and
conformations
Jan Grau, Irad Ben-Gal, Andre Gohr, Alexander Kel, Olga Kel-Margoulis,
Stefan Posch, Ivo Grosse
Prediction of eukaryotic transcription factor
binding sites using Variable Order Markov models
Philip M. Kim, Long Lu, Yu Xia and Mark Gerstein
Redefining Nodes and Edges: Relating 3D Structures
to Protein Interaction Networks Provides Insights into their Evolution