WABI 2015 Accepted Papers

Rui Henriques and Sara C. Madeira. BicNET: Efficient Biclustering of Biological Networks to Unravel Non-Trivial Modules
Denisa Duma, Francesca Cordero, Marco Beccuti, Gianfranco Ciardo, Timothy Close and Stefano Lonardi. Scrible: Ultra-Accurate Error-Correction of Pooled Sequenced Reads
Kristoffer Sahlin, Rayan Chikhi and Lars Arvestad. Genome scaffolding with PE-contaminated mate-pair libraries
Roberto Grossi, Costas Iliopoulos, Robert Mercas, Nadia Pisanti, Solon Pissis, Ahmad Retha and Fatima Vayani. Circular Sequence Comparison with q-grams
Ilan Smoly, Amir Carmel, Yonat Shemer-Avni, Esti Yeger-Lotem and Michal Ziv-Ukelson. Algorithms for Regular Tree Grammar search and their application to mining human-viral infection patterns
Rachid Ounit and Stefano Lonardi. Higher classification accuracy of short metagenomic reads by discriminative spaced k-mers
Krister Swenson and Mathieu Blanchette. Models and Algorithms for Genome Rearrangement with Positional Constraints
Gaetan Benoit, Claire Lemaitre, Dominique Lavenier, Erwan Drezen, Thibault Dayris, Raluca Uricaru and Guillaume Rizk. Reference-free compression of high throughput sequencing data with a probabilistic de Bruijn graph
Giles Miclotte, Mahdi Heydari, Piet Demeester, Pieter Audenaert and Jan Fostier. Jabba: Hybrid Error Correction for Long Sequencing Reads using Maximal Exact Matches
Manuel Lafond and Nadia El-Mabrouk. Orthology relation and Gene Tree correction: Complexity results
Yaron Orenstein and Bonnie Berger. Efficient design of compact unstructured RNA libraries covering all k-mers
Guillaume Holley, Roland Wittler and Jens Stoye. Bloom Filter Trie -- a data structure for pan-genome storage
Emre Sefer and Carl Kingsford. Nonparametric Modeling of Topological Domain Formation From Epigenetic Data
Yihan Sun, Joseph Crawford, Jie Tang and Tijana Milenkovic. Simultaneous Optimization of Both Node and Edge Conservation in Network Alignment via WAVE
Ademir Hujdurović, Urša Kačar, Martin Milanič, Bernard Ries and Alexandru I. Tomescu. Finding a perfect phylogeny from mixed tumor samples
Jun Zhou, Yu Lin, Vaibhav Rajan, William Hoskins and Jijun Tang. Maximum parsimony analysis of gene copy number changes in tumor phylogenetics
Sebastian Will and Hosna Jabbari. Sparse RNA folding revisited: space-efficient minimum free energy prediction
Zhong Sichen, Lu Zhao, Yan Liang, Mohammadzaman Zamani, Rob Patro, Rezaul Chowdhury, Esther Arkin, Joseph Mitchell and Steven Skiena. Optimizing Read Reversal for Sequence Compression (Extended Abstract)
Cinzia Pizzi. A filtering approach for alignment-free biosequences comparison with mismatches
Yaron Margalit, Yael Baran and Eran Halperin. Multiple-Ancestor Localization for Recently Admixed Individuals
Poly Hannah Da Silva, Simone Dantas, Chunfang Zheng and David Sankoff. Graph-theoretic modelling of the domain chaining problem
Peter Clote. Network properties of the ensemble of RNA structures
Yelena Frid and Dan Gusfield. A Sparsified Four-Russians algorithm for RNA folding.
Todd A. Gibson and Debra Goldberg. The Topological Profile of a Model of Protein Network Evolution Can Direct Model Improvement
Dan Gusfield and Rasmus Nielsen. Association Mapping for Compound Heterozygous Traits Using Phenotypic Distance and Integer Programming
Benjamin Drinkwater and Michael Charleston. A sub-quadratic time and space complexity solution for the dated tree reconciliation problem for select tree topologies