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Cover Art
Author WABI (Workshop) (12th : 2012 : Ljubljana, Slovenia)

Title Algorithms in bioinformatics : 12th International Workshop, WABI 2012, Ljubljana, Slovenia, September 10-12, 2012. Proceedings / Ben Raphael, Jijun Tang (eds.).

Published Berlin ; New York : Springer, ©2012.


Location Call No. Status
Physical description 1 online resource.
Series Lecture notes in bioinformatics ; 7534
Lecture notes in computer science, 0302-9743
LNCS sublibrary. SL 8, Bioinformatics
Lecture notes in computer science. Lecture notes in bioinformatics ; 7534.
Lecture notes in computer science.
LNCS sublibrary. SL 8, Bioinformatics.
Springer Lecture Notes in Computer Science
Contents Preserving Inversion Phylogeny Reconstruction / Matthias Bernt, Kun-Mao Chao, Jyun-Wei Kao, Martin Middendorf and Eric Tannier -- Fast Phylogenetic Tree Reconstruction Using Locality-Sensitive Hashing / Daniel G. Brown and Jakub Truszkowski -- Efficient Computation of Popular Phylogenetic Tree Measures / Constantinos Tsirogiannis, Brody Sandel and Dimitris Cheliotis -- SibJoin: A Fast Heuristic for Half-Sibling Reconstruction / Daniel G. Brown and Daniel Dexter -- Reconstructing the Evolution of Molecular Interaction Networks under the DMC and Link Dynamics Models / Yun Zhu and Luay Nakhleh -- Estimating Population Size via Line Graph Reconstruction / Bjarni V. Halldórsson, Dima Blokh and Roded Sharan -- Extracting Conflict-Free Information from Multi-labeled Trees / Akshay Deepak, David Fernández-Baca and Michelle M. McMahon -- Reducing Problems in Unrooted Tree Compatibility to Restricted Triangulations of Intersection Graphs / Rob Gysel, Kristian Stevens and Dan Gusfield -- An Optimal Reconciliation Algorithm for Gene Trees with Polytomies / Manuel Lafond, Krister M. Swenson and Nadia El-Mabrouk.
Accounting for Gene Tree Uncertainties Improves Gene Trees and Reconciliation Inference / Thi Hau Nguyen, Jean-Philippe Doyon, Stéphanie Pointet, Anne-Muriel Arigon Chifolleau and Vincent Ranwez, et al. -- RNA Tree Comparisons via Unrooted Unordered Alignments / Nimrod Milo, Shay Zakov, Erez Katzenelson, Eitan Bachmat and Yefim Dinitz, et al. -- Tree Decomposition and Parameterized Algorithms for RNA Structure-Sequence Alignment Including Tertiary Interactions and Pseudoknots / (Extended Abstract) / Philippe Rinaudo, Yann Ponty, Dominique Barth and Alain Denise -- [delta]-TRIMAX: Extracting Triclusters and Analysing Coregulation in Time Series Gene Expression Data / Anirban Bhar, Martin Haubrock, Anirban Mukhopadhyay, Ujjwal Maulik and Sanghamitra Bandyopadhyay, et al. -- CLIIQ: Accurate Comparative Detection and Quantification of Expressed Isoforms in a Population / Yen-Yi Lin, Phuong Dao, Faraz Hach, Marzieh Bakhshi and Fan Mo, et al. -- Improved Lower Bounds on the Compatibility of Quartets, Triplets, and Multi-state Characters / Brad Shutters, Sudheer Vakati and David Fernández-Baca -- Succinct Multibit Tree: Compact Representation of Multibit Trees by Using Succinct Data Structures in Chemical Fingerprint Searches / Yasuo Tabei.
Comparing DNA Sequence Collections by Direct Comparison of Compressed Text Indexes / Anthony J. Cox, Tobias Jakobi, Giovanna Rosone and Ole B. Schulz-Trieglaff -- Succinct de Bruijn Graphs / Alexander Bowe, Taku Onodera, Kunihiko Sadakane and Tetsuo Shibuya -- Space-Efficient and Exact de Bruijn Graph Representation Based on a Bloom Filter / Rayan Chikhi and Guillaume Rizk -- From de Bruijn Graphs to Rectangle Graphs for Genome Assembly / Nikolay Vyahhi, Alex Pyshkin, Son Pham and Pavel A. Pevzner -- MORPH-PRO: A Novel Algorithm and Web Server for Protein Morphing / Natalie E. Castellana, Andrey Lushnikov, Piotr Rotkiewicz, Natasha Sefcovic and Pavel A. Pevzner, et al. -- How Accurately Can We Model Protein Structures with Dihedral Angles? / Xuefeng Cui, Shuai Cheng Li, Dongbo Bu, Babak Alipanahi Ramandi and Ming Li -- Resolving Spatial Inconsistencies in Chromosome Conformation Data / Geet Duggal, Rob Patro, Emre Sefer, Hao Wang and Darya Filippova, et al. -- MS-DPR: An Algorithm for Computing Statistical Significance of Spectral Identifications of Non-linear Peptides / Hosein Mohimani, Sangtae Kim and Pavel A. Pevzner.
FinIS: Improved in silico Finishing Using an Exact Quadratic Programming Formulation / Song Gao, Denis Bertrand and Niranjan Nagarajan -- Lightweight LCP Construction for Next-Generation Sequencing Datasets / Markus J. Bauer, Anthony J. Cox, Giovanna Rosone and Marinella Sciortino -- Sign Assignment Problems on Protein Networks / Shay Houri and Roded Sharan -- Sparse Learning Based Linear Coherent Bi-clustering / Yi Shi, Xiaoping Liao, Xinhua Zhang, Guohui Lin and Dale Schuurmans -- A Simplified View of DCJ-Indel Distance / Phillip E.C. Compeau -- DCJ-indel Distance with Distinct Operation Costs / Poly H. da Silva, Marília D.V. Braga, Raphael Machado and Simone Dantas -- Hidden Breakpoints in Genome Alignments / Birte Kehr, Knut Reinert and Aaron E. Darling -- A Probabilistic Approach to Accurate Abundance-Based Binning of Metagenomic Reads / Olga Tanaseichuk, James Borneman and Tao Jiang -- Tandem Halving Problems by DCJ / Antoine Thomas, Aïda Ouangraoua and Jean-Stéphane Varré -- A Practical Approximation Algorithm for Solving Massive Instances of Hybridization Number / Leo van Iersel, Steven Kelk, Nela Lekić and Celine Scornavacca -- Distributed String Mining for High-Throughput Sequencing Data / Niko Välimäki and Simon J. Puglisi.
Bibliography Includes bibliographical references and author index.
Summary This book constitutes the refereed proceedings of the 12th International Workshop on Algorithms in Bioinformatics, WABI 2012, held in Ljubljana, Slovenia, in September 2012. WABI 2012 is one of six workshops which, along with the European Symposium on Algorithms (ESA), constitute the ALGO annual meeting and focuses on algorithmic advances in bioinformatics, computational biology, and systems biology with a particular emphasis on discrete algorithms and machine-learning methods that address important problems in molecular biology. The 35 full papers presented were carefully reviewed and selected from 92 submissions. The papers include algorithms for a variety of biological problems including phylogeny, DNA and RNA sequencing and analysis, protein structure, and others.
Other author Raphael, Benjamin J., 1974-
Tang, Jijun.
SpringerLink issuing body.
Subject Computer algorithms -- Congresses.
Bioinformatics -- Mathematics -- Congresses.
Computer science.
Computer software.
Computational complexity.
Data mining.
Computational Biology/Bioinformatics.
Algorithm Analysis and Problem Complexity.
Discrete Mathematics in Computer Science.
Numeric Computing.
Electronic books.
Variant Title WABI 2012
ISBN 9783642331220
Standard Number 10.1007/978-3-642-33122-0