News

All that is new in Genome Reviews...
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EMBL

The EMBL nucleotide database collects sequence data reported world-wide...
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SGD

SGD is a scientific database of the molecular biology and genetics of the yeast Saccharomyces cerevisiae...
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TAIR

The Arabidopsis Information Resource (TAIR) provides a comprehensive resource for the scientific community working with Arabidopsis thaliana...
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EBI Databases Nucleotides Genome Reviews

Genome Reviews

Search for gene/protein in

The Genome Reviews database provides an up-to-date, standardised and comprehensively annotated view of the genomic sequence of organisms with completely deciphered genomes. Currently, Genome Reviews contains the genomes of archaea, bacteria, bacteriophages and selected eukaryota. Genome Reviews is available as a MySQL relational database, or a flat file format derived from that in the EMBL Nucleotide Sequence Database.

Latest News

28/07/2009

Genome Reviews has been extended to cover a broader set of genomes, with the addition of some 30 additional eukaryotic genomes not available through Ensembl.

16/04/2008 Transcript records are now available for all phage, archaeal, bacterial and eukaryotic genomes present in Genome Reviews. Full details of these changes are provided in section 6 of the user manual. All data is available in FASTA format, and additionally in a richer file format, EMBL CDS - like format, containing more detailed, structured annotation. Transcript sets for components and complete genomes can be accessed by ftp using the appropriate link below: ftp://ftp.ebi.ac.uk/pub/databases/integr8/transcript_sets/dat/components/ ftp://ftp.ebi.ac.uk/pub/databases/integr8/transcript_sets/dat/proteomes/

05/02/2008

We are now using RNAmmer software (Lagesen K. et al. (2007) to predict ribosomal RNA genes, in place of the program rfam_scan.pl. Full details of these changes are provided in section 4.4.3 of the user manual.

13/12/2007

We have launched a new version of the Genome Reviews Ensembl browser. All cellular and phage genomes in the Genome Reviews database can be searched and displayed. The new browser also adds the capability to configure a range of new DAS sources. Information on how to use the browser is available under HELP.

Genome Reviews Browser

An Ensembl-style browser is now available for Genome Reviews, providing a zoomable graphical view of all chromosomes and plasmids represented in the database. The location and structure of all genes is shown and the distribution of features throughout the sequence is displayed.

Select your gene or protein of interest, and then click on the

icon to enter the browser centred on the specified gene. More information about using the Integr8 search facility is available. Help is available when using the browser by clicking on the help icon that appears on every page. Click here for a movie to show you how...

Database Documentation/Software

User Manual	http://www.ebi.ac.uk/GenomeReviews/userman.html
GR Feature Table	http://www.ebi.ac.uk/GenomeReviews/files/webfeat/
Release Notes	ftp://ftp.ebi.ac.uk/pub/databases/genome_reviews/ReleaseNotes.txt
Release Statistics	Cellular organisms	http://www.ebi.ac.uk/GenomeReviews/stats/cellular/
	Bacteriophage	http://www.ebi.ac.uk/GenomeReviews/stats/phage/
Download flat files	Cellular organisms	http://www.ebi.ac.uk/GenomeReviews/files/cellular/
	Bacteriophage	http://www.ebi.ac.uk/GenomeReviews/files/phage/
	Gene sets	ftp://ftp.ebi.ac.uk/pub/databases/integr8/gene_sets/
Programmatic access	http://www.ebi.ac.uk/cgi-bin/dbfetch
Download MySQL files	ftp://ftp.ebi.ac.uk/pub/databases/genome_reviews/sql/
Software	ftp://ftp.ebi.ac.uk/pub/software/genome_reviews/
Mailing List	http://listserver.ebi.ac.uk/mailman/listinfo/genomereviews-announce

This project is funded by the European Commission under FELICS, contract number 021902 (RII3) within the Research Infrastructure Action of the FP6 "Structuring the European Research Area" Programme