A new approach to clustering the amino acids

A new approach to clustering the amino acids

0.00 Avg rating0 Votes
Article ID: iaor20003514
Country: United States
Volume: 183
Issue: 2
Start Page Number: 195
End Page Number: 205
Publication Date: Nov 1996
Journal: Journal of Theoretical Biology
Authors:
Keywords: programming: integer, statistics: multivariate
Abstract:

Each amino acid is represented by a vector of numerical measurements for the attributes of volume, area, hydrophilicity, polarity, hydrogen bonding, shape, and charge. Inter-residue distances are then calculated according to common metrics, and we introduce a new clustering objective function derived from information theoretic considerations. The argument of the function are the inter-object distances of the things to be clustered: in this case the amino acids. By means of approximating the solution of a integer programming problem, then, the residues are partitioned into clusters. The clusters obtained are compared with groups obtained in substitution/mutation studies and found to be similar. Thus, probably the strongest and most objective evidence to date is supplied for believing that physico-chemical properties account for the viability of substitutions and that the important similarities/differences are explained by a relatively small and simple set of properties.

Reviews

Required fields are marked *. Your email address will not be published.