GeneDB-an annotation database for pathogens

Flora J. Logan-Klumpler, Nishadi De Silva, Ulrike Boehme, Matthew B. Rogers, Giles Velarde, Jacqueline A. McQuillan, Tim Carver, Martin Aslett, Christian Olsen, Sandhya Subramanian, Isabelle Phan, Carol Farris, Siddhartha Mitra, Gowthaman Ramasamy, Haiming Wang, Adrian Tivey, Andrew Jackson, Robin Houston, Julian Parkhill, Matthew HoldenOmar S. Harb, Brian P. Brunk, Peter J. Myler, David Roos, Mark Carrington, Deborah F. Smith, Christiane Hertz-Fowler, Matthew Berriman

Research output: Contribution to journalArticlepeer-review


GeneDB ( is a genome database for prokaryotic and eukaryotic pathogens and closely related organisms. The resource provides a portal to genome sequence and annotation data, which is primarily generated by the Pathogen Genomics group at the Wellcome Trust Sanger Institute. It combines data from completed and ongoing genome projects with curated annotation, which is readily accessible from a web based resource. The development of the database in recent years has focused on providing database-driven annotation tools and pipelines, as well as catering for increasingly frequent assembly updates. The website has been significantly redesigned to take advantage of current web technologies, and improve usability. The current release stores 41 data sets, of which 17 are manually curated and maintained by biologists, who review and incorporate data from the scientific literature, as well as other sources. GeneDB is primarily a production and annotation database for the genomes of predominantly pathogenic organisms.

Original languageEnglish
Pages (from-to)D98-D108
Number of pages11
JournalNucleic Acids Research
Issue numberD1
Publication statusPublished - Jan 2012

Cite this