A rapid method for characterization of protein relatedness using feature vectors.

ABSTRACT: We propose a feature vector approach to characterize the variation in large data sets of biological sequences. Each candidate sequence produces a single feature vector constructed with the number and location of amino acids or nucleic acids in the sequence. The feature vector characterizes the distance between the actual sequence and a model of a theoretical sequence based on the binomial and uniform distributions. This method is distinctive in that it does not rely on sequence alignment for determining protein relatedness, allowing the user to visualize the relationships within a set of proteins without making a priori assumptions about those proteins. We apply our method to two large families of proteins: protein kinase C, and globins, including hemoglobins and myoglobins. We interpret t

SUBMITTER: Carr K 

PROVIDER: S-EPMC2832692 | biostudies-literature | 2010 Mar

REPOSITORIES: biostudies-literature