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RECOMB
2010
Springer
8 years 3 months ago
Consistency of Sequence-Based Gene Clusters
In comparative genomics, various combinatorial models can be used to specify gene clusters — groups of genes that are co-located in a set of genomes. Several approaches have been...
Roland Wittler, Jens Stoye
RECOMB
2010
Springer
8 years 3 months ago
Scaffold Filling under the Breakpoint Distance
Motivated by the trend of genome sequencing without completing the sequence of the whole genomes, Mu˜noz et al. recently studied the problem of filling an incomplete multichromos...
Haitao Jiang, Chunfang Zheng, David Sankoff, Binha...
RECOMB
2010
Springer
8 years 3 months ago
An Approximation Algorithm for Computing a Parsimonious First Speciation in the Gene Duplication Model
We consider the following problem: given a forest of gene family trees on a set of genomes, find a first speciation which splits these genomes into two subsets and minimizes the ...
Aïda Ouangraoua, Krister M. Swenson, Cedric C...
RECOMB
2010
Springer
8 years 3 months ago
Predicting Nucleosome Positioning Using Multiple Evidence Tracks
Abstract. We describe a probabilistic model, implemented as a dynamic Bayesian network, that can be used to predict nucleosome positioning along a chromosome based on one or more g...
Sheila M. Reynolds, Zhiping Weng, Jeff A. Bilmes, ...
RECOMB
2010
Springer
8 years 3 months ago
Genovo: De Novo Assembly for Metagenomes
Jonathan Laserson, Vladimir Jojic, Daphne Koller
RECOMB
2010
Springer
8 years 3 months ago
The Problem of Chromosome Reincorporation in DCJ Sorting and Halving
We study two problems in the double cut and join (DCJ) model: sorting – transforming one multilinear genome into another and halving – transforming a duplicated genome into a p...
Jakub Kovác, Marília D. V. Braga, Je...
RECOMB
2010
Springer
8 years 3 months ago
Detecting Highways of Horizontal Gene Transfer
Abstract. In a horizontal gene transfer (HGT) event a gene is transferred between two species that do not share an ancestor-descendant relationship. Typically, no more than a few g...
Mukul S. Bansal, J. Peter Gogarten, Ron Shamir
BICOB
2010
Springer
8 years 4 months ago
Iterative Split Adjustment for Building Multilabel Decision Trees
A decision tree induction method for multilabel classification tasks (IS-MLT) is presented which uses an iterative approach for determining the best split at each node. The propo...
Aiyesha Ma, Ishwar K. Sethi
BMCBI
2004
208views more  BMCBI 2004»
8 years 5 months ago
Using 3D Hidden Markov Models that explicitly represent spatial coordinates to model and compare protein structures
Background: Hidden Markov Models (HMMs) have proven very useful in computational biology for such applications as sequence pattern matching, gene-finding, and structure prediction...
Vadim Alexandrov, Mark Gerstein
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