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Unsupervised statistical identification of genomic islands using oligonucleotide distributions with application to Vibrio genomes

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Title Unsupervised statistical identification of genomic islands
using oligonucleotide distributions with application to
Vibrio genomes
 
Creator Nag, Sanjay
Chatterjee, Raghunath
Chaudhuri, Keya
Chaudhuri, Probal
 
Subject Molecular & Human Genetics
 
Description Vibrio cholerae, Vibrio vulnificus, Vibrio parahaemolyticus and several other related Vibrio species show distinctly similar two-chromosomal genome organization. However, the modes of pathogenicity are very different among these
species, and this is largely attributed to externally acquired genetic elements. We develop some statistical methods to determine these external genetic elements
or genomic islands in genomes based on their differential oligonucleotide usage patterns compared to the rest of the genome. Genomic islands identified by these unsupervised statistical methods include integron and pathogenicity islands. After statistical determination of the genomic islands, we investigate their gene contents and their possible association with the pathogenic behaviour of the corresponding Vibrio species. These investigations lead to observations that are of evolutionary and biological significance.
 
Date 2006
 
Type Article
PeerReviewed
 
Format application/pdf
 
Identifier http://www.eprints.iicb.res.in/486/1/SADHANA%2DACADEMY_PROCEEDINGS_IN_ENGINEERING_SCIENCES%2C__31%2C105%2D115%2C[112].pdf
Nag, Sanjay and Chatterjee, Raghunath and Chaudhuri, Keya and Chaudhuri, Probal (2006) Unsupervised statistical identification of genomic islands using oligonucleotide distributions with application to Vibrio genomes. Sadhana , 31. pp. 105-115.
 
Relation http://dx.doi.org/10.1007/BF02719776
http://www.eprints.iicb.res.in/486/