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Algorithms for Molecular Biology, Volume 6
Volume 6, 2011
- Raffaele Giancarlo, Filippo Utro
:
Speeding up the Consensus Clustering methodology for microarray data analysis. 1 - Michael Hackenberg
WordCluster: detecting clusters of DNA words and genomic elements. 2 - Stephan H. Bernhart, Ulrike Mückstein, Ivo L. Hofacker
RNA Accessibility in cubic time. 3 - Christian Otto
Fast local fragment chaining using sum-of-pair gap costs. 4 - Alberto Apostolico, Cinzia Pizzi, Esko Ukkonen
Efficient algorithms for the discovery of gapped factors. 5 - Chen-Ming Hsu, Chien-Yu Chen
WildSpan: mining structured motifs from protein sequences. 6 - M. Shel Swenson, Rahul Suri, C. Randal Linder, Tandy J. Warnow:
An experimental study of Quartets MaxCut and other supertree methods. 7 - Duong Dai Doan, Patricia A. Evans:
An FPT haplotyping algorithm on pedigrees with a small number of sites. 8 - Marius Nicolae, Serghei Mangul, Ion I. Mandoiu
Estimation of alternative splicing isoform frequencies from RNA-Seq data. 9 - Bonnie Kirkpatrick:
Haplotypes versus genotypes on pedigrees. 10 - Krister M. Swenson, Ghada Badr, David Sankoff:
Listing all sorting reversals in quadratic time. 11 - Raghavendra Hosur, Rohit Singh
Sparse estimation for structural variability. 12 - Alexandra M. Carvalho
GRISOTTO: A greedy approach to improve combinatorial algorithms for motif discovery with prior knowledge. 13 - Huakun Wang, Zhenzhen Wang, Xia Li, Binsheng Gong
A robust approach based on Weibull distribution for clustering gene expression data. 14 - Jesper Buus Nielsen, Anders K. Kristensen, Thomas Mailund
A sub-cubic time algorithm for computing the quartet distance between two general trees. 15 - Bill Andreopoulos, Dirk Labudde:
Efficient unfolding pattern recognition in single molecule force spectroscopy data. 16 - Alex Rodionov, Alexandr Bezginov, Jonathan Rose, Elisabeth R. M. Tillier
A new, fast algorithm for detecting protein coevolution using maximum compatible cliques. 17 - Akdes Serin, Martin Vingron
DeBi: Discovering Differentially Expressed Biclusters using a Frequent Itemset Approach. 18 - A. K. M. Azad, Saima Shahid
Prediction of plant promoters based on hexamers and random triplet pair analysis. 19 - Shay Zakov, Dekel Tsur
Reducing the worst case running times of a family of RNA and CFG problems, using Valiant's approach. 20 - Britta Dorn, Falk Hüffner
Exploiting bounded signal flow for graph orientation based on cause-effect pairs. 21 - Stelios Pavlidis, Annette M. Payne
Multi-membership gene regulation in pathway based microarray analysis. 22 - Vladimir Yanovsky:
ReCoil - an algorithm for compression of extremely large datasets of dna data. 23 - Markus E. Nebel, Anika Scheid, Frank Weinberg:
Random generation of RNA secondary structures according to native distributions. 24 - Valery Polyanovsky
Comparative analysis of the quality of a global algorithm and a local algorithm for alignment of two sequences. 25 - Ronny Lorenz
ViennaRNA Package 2.0. 26 - Tahir Mehmood
A Partial Least Squares based algorithm for parsimonious variable selection. 27
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