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» The Distribution of Genomic Distance between Random Genomes
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BMCBI
2005
97views more  BMCBI 2005»
14 years 11 months ago
Evolutionary distance estimation and fidelity of pair wise sequence alignment
Background: Evolutionary distances are a critical measure in comparative genomics and molecular evolutionary biology. A simulation study was used to examine the effect of alignmen...
Michael S. Rosenberg
ALMOB
2008
131views more  ALMOB 2008»
14 years 11 months ago
Fast algorithms for computing sequence distances by exhaustive substring composition
The increasing throughput of sequencing raises growing needs for methods of sequence analysis and comparison on a genomic scale, notably, in connection with phylogenetic tree reco...
Alberto Apostolico, Olgert Denas
BMCBI
2007
95views more  BMCBI 2007»
14 years 11 months ago
Phylogenetic tree information aids supervised learning for predicting protein-protein interaction based on distance matrices
Background: Protein-protein interactions are critical for cellular functions. Recently developed computational approaches for predicting protein-protein interactions utilize co-ev...
Roger A. Craig, Li Liao
RSA
2011
106views more  RSA 2011»
14 years 2 months ago
Distances between pairs of vertices and vertical profile in conditioned Galton-Watson trees
We consider a conditioned Galton–Watson tree and prove an estimate of the number of pairs of vertices with a given distance, or, equivalently, the number of paths of a given leng...
Luc Devroye, Svante Janson
BMCBI
2011
14 years 6 months ago
N-gram analysis of 970 microbial organisms reveals presence of biological language models
Background: It has been suggested previously that genome and proteome sequences show characteristics typical of natural-language texts such as “signature-style” word usage ind...
Hatice U. Osmanbeyoglu, Madhavi Ganapathiraju