GenomeLKPG : A comprehensive proteome sequencedatabase for taxonomy studies

• Background: In order to perform taxonomically unbiased analyses of protein relationships, there is a need ofcomplete proteomes rather than databases with bias towards well characterized protein families. However, nocomprehensive resource of completed proteomes is currently available. Instead, the proteomes need to be down-loaded manually from di®erent servers, all using different filename conventions and fasta header formats. Results: We have developed a semi-automatic algorithm that retrieves complete proteomes from multiple FTP-servers and maps the species-speci¯c sequence entries to the NCBI taxonomy. The compiled data is provided ina sequence database named genomeLKPG. Conclusions: The usefulness of genomeLKPG is proven in several published taxonomical studies.

Nyckelord

NATURAL SCIENCES

NATURVETENSKAP

Publikations- och innehållstyp

ref (ämneskategori)

art (ämneskategori)