The program committee of WABI'06 received 100 submissions and was able to accept 36 of them, listed below in no particular order.
Christian Blum and Mateu Yábar Vallès. New constructive
heuristics for DNA sequencing by hybridization
Laxmi
Parida. Gapped Permutation Patterns for Comparative Genomics
Anne Bergeron, Julia Mixtacki and Jens Stoye. A unifying
view of genome rearrangements
Daniel Huson, Mike Steel
and Jim Whitfield. Reducing Distortion in Phylogenetic Networks
Barbara Holland, Glenn Conner, Katharina T. Huber and
Vincent Moulton. Imputing supertrees and supernetworks from
quartets
Mee Yee Chan, Wun-Tat Chan, Francis Chin,
Stanley Fung and Ming-Yang Kao. Linear-Time Haplotype Inference on
Pedigree without Recombinations
Geir Kjetil Sandve,
Magnar Nedland, Oyvind Bo Syrstad, Lars Andreas Eidsheim, Osman Abul
and Finn Drablos. Accelerating Motif Discovery: Motif Matching on
Parallel Hardware
Jeff M. Phillips, Johannes Rudolph and
Pankaj K. Agarwal. Segmenting Motifs in Protein-Protein Interface
Surfaces
Marco Terzer and Joerg Stelling. Accelerating
the Computation of Elementary Modes Using Pattern Trees
Eun-Jong Hong and Tomas Lozano-Perez. Protein Side-chain Placement
through MAP Estimation and Problem-Size Reduction
Shuai
Cheng Li and Ming Li. On the Complexity of the Crossing Contact Map
Pattern Matching Problem
Lusheng Wang, Yu Lin and Xiaowen
Liu. Approximation Algorithms for Bi-clustering Problems
Dandan Song and Zhidong Deng. A Fuzzy Dynamic Programming Approach
to Predict RNA Secondary Structure
István Miklós, Timothy
Brooks Paige and Péter Ligeti. Efficient Sampling of transpositions
and inverted transpositions for Bayesian MCMC
Hongmei
Zhu, Jiaxin Wang, Zehong Yang and Yixu Song. A Method to Design
Standard HMMs with Desired Length Distribution for Biological
Sequence Analysis
Marta Łuksza, Bogusław Kluge, Jerzy
Ostrowski, Jakub Karczmarski and Anna Gambin. Efficient Model-Based
Clustering for LC-MS Data
Kathleen Steinhöfel, Alexandros
Skaliotis and Andreas A. Albrecht. Landscape Analysis for Protein
Folding Simulation in the H-P Model
Jens Gramm, Tzvika
Hartman, Till Neirhoff, Roded Sharan and Till Tantau. On the
Complexity of SNP Block Partitioning Under the Perfect Phylogeny
Model
Jieping Ye, Ivaylo Ilinkin, Ravi Janardan and Adam
Isom. Multiple structure alignment and consensus identification for
proteins
Sebastian Böcker, Zsuzsanna Lipták and Anton
Pervukhin. Decomposing metabolomic isotope patterns
Jizhen Zhao, Russell Malmberg and Liming Cai. Rapid ab initio RNA
Folding Including Pseudoknots via Graph Tree Decomposition
Pedro Gonnet, Yves Barral, Nicol N. Schraudolph, Markus Friberg
and Gaston H. Gonnet. Pairwise Codon Bias Suggests Context-Dependent
DNA Repair in Saccharomyces cerevisiae
Dekel
Tsur. Optimal Probing Patterns for Sequencing By Hybridization
Paul Jenkins, Rune Lyngsoe and Jotun Hein. How Many
Transcripts does it Take to Reconstruct the Splice Graph?
Yinglei Song, Chunmei Liu, Russell Malmberg and Liming
Cai. Phylogenetic Network Inferences through Efficient
Haplotyping
Aaron Darling, Todd Treangen, Louxin Zhang,
Carla Kuiken, Xavier Messeguer and Nicole Perna. Procrastination
leads to efficient filtration for local multiple alignment
Oleg Rokhlenko, Tomer Shlomi, Roded Sharan, Eytan Ruppin and Ron
Pinter. Flux Based vs. Topology Based Similarity of Metabolic
Genes
Miklos Csuros, Ming-Te Cheng, Andreas Grimm, Amine
Halawani and Perrine Landreau. Segmentation with an isochore
distribution
Lukas Burger and Erik van Nimwegen. A
Bayesian algorithm for reconstructing bacterial signaling
networks
Dumitru Brinza and Alexander
Zelikovsky. Combinatorial Methods for Disease Association Search and
Susceptibility Prediction
Leo van Iersel, Judith
Keijsper, Steven Kelk and Leen Stougie. Beaches of islands of
tractability: Algorithms for parsimony and minimum perfect phylogeny
haplotyping problems
Nikola Stojanovic and Piotr
Berman. A linear-time algorithm for studying genetic variation
Augusto Vellozo, Carlos Eduardo Alves and Alair do
Lago. Alignment with non-overlapping inversions in cubic time
Minmei Hou, Piotr Berman, Louxin Zhang and Webb
Miller. Controlling size when aligning multiple genomic sequences
with duplications
Sven Rahmann and Gunnar Klau. Integer
Linear Programs for Discovering Approximate Gene Clusters
Sven Rahmann and Sergio A. de Carvalho Jr.. Improving the Layout
of Oligonucleotide Microarrays: Pivot Partitioning
