Analysis of correlated mutations in HIV-1 protease using spectral clustering.

ABSTRACT:

Motivation

The ability of human immunodeficiency virus-1 (HIV-1) protease to develop mutations that confer multi-drug resistance (MDR) has been a major obstacle in designing rational therapies against HIV. Resistance is usually imparted by a cooperative mechanism that can be elucidated by a covariance analysis of sequence data. Identification of such correlated substitutions of amino acids may be obscured by evolutionary noise.

Results

HIV-1 protease sequences from patients subjected to different specific treatments (set 1), and from untreated patients (set 2) were subjected to sequence covariance analysis by evaluating the mutual information (MI) between all residue pairs. Spectral clustering of the resulting covariance matrices disclosed two distinctive clusters of correla

SUBMITTER: Liu Y 

PROVIDER: S-EPMC2373918 | biostudies-literature | 2008 May

REPOSITORIES: biostudies-literature