CLUSS: clustering of protein sequences based on a new similarity measure.

ABSTRACT:

Background

The rapid burgeoning of available protein data makes the use of clustering within families of proteins increasingly important. The challenge is to identify subfamilies of evolutionarily related sequences. This identification reveals phylogenetic relationships, which provide prior knowledge to help researchers understand biological phenomena. A good evolutionary model is essential to achieve a clustering that reflects the biological reality, and an accurate estimate of protein sequence similarity is crucial to the building of such a model. Most existing algorithms estimate this similarity using techniques that are not necessarily biologically plausible, especially for hard-to-align sequences such as proteins with different domain structures, which cause many difficulties

SUBMITTER: Kelil A 

PROVIDER: S-EPMC1976428 | biostudies-literature | 2007 Aug

REPOSITORIES: biostudies-literature