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RECOMB
2004
Springer
16 years 3 months ago
Multiple organism gene finding by collapsed gibbs sampling
The Gibbs sampling method has been widely used for sequence analysis after it was successfully applied to the problem of identifying regulatory motif sequences upstream of genes. ...
Sourav Chatterji, Lior Pachter
113
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RECOMB
2004
Springer
16 years 3 months ago
Structured motifs search
In this paper we describe an algorithm for the localization of structured models, i.e. sequences of (simple) motifs and distance constraints. It basically combines standard patter...
Alberto Policriti, Nicola Vitacolonna, Michele Mor...
RECOMB
2003
Springer
16 years 3 months ago
Towards optimally multiplexed applications of universal DNA tag systems
We study a design and optimization problem that occurs, for example, when single nucleotide polymorphisms (SNPs) are to be genotyped using a universal DNA tag array. The problem o...
Amir Ben-Dor, Tzvika Hartman, Benno Schwikowski, R...
RECOMB
2009
Springer
15 years 10 months ago
Phylogenies without Branch Bounds: Contracting the Short, Pruning the Deep
Abstract Constantinos Daskalakis1 , Elchanan Mossel2, , and Sebastien Roch1 1 Microsoft Research 2 UC Berkeley and Weizman Institute We introduce a new phylogenetic reconstruction ...
Constantinos Daskalakis, Elchanan Mossel, Sé...
RECOMB
2009
Springer
15 years 10 months ago
Reconstructing Histories of Complex Gene Clusters on a Phylogeny
Abstract. Clusters of genes that have evolved by repeated segmental duplication present difficult challenges throughout genomic analysis, from sequence assembly to functional analy...
Tomás Vinar, Brona Brejová, Giltae S...