Browse gene annotations by category

Annotation Updates Log

Browse the log of all annotations updates based on manual curation, primarily those involving the P. aeruginosa PAO1 genome.

Clusters of Orthologous Groups (COGs)

COG mappings for Pseudomonas aeruginosa PAO1 based on the 2014 analysis available at NCBI's COG database.

Functional Domain Mappings

Functional domain predictions made using the InterProScan software package.

Gene Ontology (GO) Term Annotations

Strain-specific GO annotations obtained from multiple sources using various approaches (e.g. manual curation, automatic assignment by sequence similarity,etc).

Orthologs

Based on a reciprocal best-blast (RBB) search between proteins found in the two genomes. When applicable, the RBB hits were subject to further evaluation using Ortholuge, a computational tool for generating more precised ortholog predictions (developed by the Brinkman Lab).

Pathway Annotations

Strain-specific search of pathways obtained from multiple sources using various approaches (e.g. manual curation, automatic assignment by sequence similarity,etc).

Proteins With Human Homologs

Proteins that have human homologs based on a Blastp search of the Ensembl Database(E-value=1e-4).

Proteins With Known 3D Structures

Proteins that have known 3D structures in the Protein Database OR have greater than 90% similarity to proteins with a known 3D structure.

Transposon Insertions

Transposon insertion sites obtained from 3 different comprehensive transposon mutant libraries (two in P. aeruginosa PAO1 and one in PA14).

Virulence Factor Evidence

This is a conservative list of Pseudomonas species virulence factors obtained from the Virulence Factor Database (VFDB), Victors Virulence Factors (PHIDIAS) and curation by PseudoCAP with focus being primarily on PAO1 and PA14.

Browse strain and replicon-specific data

Strains in this Database

View a current list of strains in this database. The list can be filtered by a growing range of metadata fields including antibiotic profile and sequencing status.

Replicons in this Database

View a current list of chromosomes, plasmids and contigs stored in this database. The list can be filtered by a range of parameters including species, length and assembly status.

NCBI Genome/Transcriptome Project Summaries

This is a list of Pseudomonas species genome sequencing and transcriptome projects registered at NCBI. It contains Pseudomonas species projects available at NCBI that have AT LEAST one BioSample registered with them. Therefore, more projects may be available directly through NCBI's BioProject site. If you are looking for a list of strains that have their annotations and sequences stored in this database, please go to List of Strain-Specific Summaries and Analyses

NCBI Gene Expression Datasets (GEO)

List of Pseudomonas species datasets available at the NCBI Gene Expression Omnibus (GEO) database.

If you click on a project's details, it will bring you to a page containing a list of GEO Profiles where each row represents a single gene or intergenic region and displays its expression profile over the different sample conditions.