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RECOMB
2008
Springer
14 years 5 months ago
Algorithms for Exploring the Space of Gene Tree/Species Tree Reconciliations
We describe algorithms to explore the space of all possible reconciliations between a gene tree and a species tree. We propose an algorithm for generating a random reconciliation, ...
Jean-Philippe Doyon, Cedric Chauve, Sylvie Hamel
RECOMB
2008
Springer
14 years 5 months ago
Perfect DCJ Rearrangement
We study the problem of transforming a multichromosomal genome into another using Double-Cut-and-Join (DCJ) operations. We introduce the notion of DCJ scenario that does not break ...
Sèverine Bérard, Annie Chateau, Cedr...
RECOMB
2008
Springer
14 years 5 months ago
Spectrum Fusion: Using Multiple Mass Spectra for De Novo Peptide Sequencing
We report on a new algorithm for combining the information from several mass spectra of the same peptide. The algorithm automatically learns peptide fragmentation patterns, so that...
Ritendra Datta, Marshall W. Bern
RECOMB
2008
Springer
14 years 5 months ago
A Bayesian Approach to Protein Inference Problem in Shotgun Proteomics
The protein inference problem represents a major challenge in shotgun proteomics. Here we describe a novel Bayesian approach to address this challenge that incorporates the predict...
Yong Fuga Li, Randy J. Arnold, Yixue Li, Predrag R...
RECOMB
2008
Springer
14 years 5 months ago
Ab Initio Whole Genome Shotgun Assembly with Mated Short Reads
Next Generation Sequencing (NGS) technologies are capable of reading millions of short DNA sequences both quickly and cheaply. While these technologies are already being used for r...
Paul Medvedev, Michael Brudno