A Novel Method for Estimating Substitution Rate Variation Among Sites in a Large Dataset of Homologous DNA Sequences | Zendy

Graziano Pesole | Zendy; Cecilia Saccone | Zendy

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A Novel Method for Estimating Substitution Rate Variation Among Sites in a Large Dataset of Homologous DNA Sequences

Author(s) -

Graziano Pesole,

Cecilia Saccone

Publication year - 2001

Publication title -

genetics

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 2.792

H-Index - 246

eISSN - 1943-2631

pISSN - 0016-6731

DOI - 10.1093/genetics/157.2.859

Subject(s) - biology , hypervariable region , substitution (logic) , genetics , homologous chromosome , mitochondrial dna , computational biology , variation (astronomy) , dna , dna sequencing , evolutionary biology , computer science , gene , physics , astrophysics , programming language

We present here a novel method to estimate the site-specific relative variability in large sets of homologous sequences. It is based on the simple idea that the more closely related are the compared sequences, the higher the probability of observing nucleotide changes at rapidly evolving sites. A simulation study has been carried out to support the reliability of the method, which has been applied also to analyzing the site variability of all available human sequences corresponding to the two hypervariable regions of the mitochondrial D-loop.

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