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» The Distribution of Genomic Distance between Random Genomes
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BMCBI
2005
97views more  BMCBI 2005»
13 years 7 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»
13 years 7 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»
13 years 7 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»
12 years 10 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
13 years 2 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