String kernels for protein sequence comparisons: improved fold recognition.

ABSTRACT:

Background

The amino acid sequence of a protein is the blueprint from which its structure and ultimately function can be derived. Therefore, sequence comparison methods remain essential for the determination of similarity between proteins. Traditional approaches for comparing two protein sequences begin with strings of letters (amino acids) that represent the sequences, before generating textual alignments between these strings and providing scores for each alignment. When the similitude between the two protein sequences to be compared is low however, the quality of the corresponding sequence alignment is usually poor, leading to poor performance for the recognition of similarity.

Results

In this study, we develop an alignment free alternative to these methods that is based

SUBMITTER: Nojoomi S 

PROVIDER: S-EPMC5331664 | biostudies-literature | 2017 Feb

REPOSITORIES: biostudies-literature