JACOP: a simple and robust method for the automated classification of protein sequences with modular architecture.

ABSTRACT:

Background

Whole-genome sequencing projects are rapidly producing an enormous number of new sequences. Consequently almost every family of proteins now contains hundreds of members. It has thus become necessary to develop tools, which classify protein sequences automatically and also quickly and reliably. The difficulty of this task is intimately linked to the mechanism by which protein sequences diverge, i.e. by simultaneous residue substitutions, insertions and/or deletions and whole domain reorganisations (duplications/swapping/fusion).

Results

Here we present a novel approach, which is based on random sampling of sub-sequences (probes) out of a set of input sequences. The probes are compared to the input sequences, after a normalisation step; the results are used to part

SUBMITTER: Sperisen P 

PROVIDER: S-EPMC1208858 | biostudies-literature | 2005 Aug

REPOSITORIES: biostudies-literature