Comparative Genome Search

You may use this search function to find orthologous genes (determined by reciprocal best BLAST) that are present in one set of genomes and absent in another set.

Find genes that have orthologs in:

(Hold CRTL to select/deselect multiple genomes)
ALL of the following genomes:
(required)


AND
NONE of the following genomes:
(optional)


Filter Transposon Mutants: Explanation of Filter by Transposon Mutant search
Filter Human Homologs: Explanation of Filter by Human Homolog

Specify Search Fields and Keywords:

(Optional)
 
Exact Explanation of Wildcard search
Exact Explanation of Wildcard search
Exact Explanation of Wildcard search
Exact Explanation of Wildcard search

You may use this search function to perform comparative analyses of orthologous genes (determined by reciprocal best BLAST) in order to:

1) Find orthologs present in one set of genomes (e.g. two or more strains selected from left box)
    Example:
    You would like to find all orthologous genes that are present in BOTH P. aeruginosa PAO1 and P. aeruginosa PA14
    Steps:
    a) Select P. aeruginosa PAO1 and P. aeruginosa PA14 from the left box
    b) Click on submit.
2) Find orthologs present in one set of genomes (e.g. two or more strains selected from left box) while absent from another set (e.g. one or more genomes selected from right box).
    Example:
    You would like to find all orthologous genes that are present in BOTH P. aeruginosa PAO1 and P. aeruginosa LES but NOT present in P. aeruginosa PA7.
    Steps:
    a) Select P. aeruginosa PAO1 and P. aeruginosa LES from the left box
    b) Select P. aeruginosa PA7 from the right box
    c) Click on submit.
3) Find a list of genes in one strain/species that do not have orthologs in another strain/species.
    Example:
    You would like to find all genes in P. aeruginosa PAO1 that do not have orthologs in P. aeruginosa PA7.
    Steps:
    a) Select P. aeruginosa PAO1 from the left box
    b) Select P. aeruginosa PA7 from the right box
    c) Click on submit.
These results can be further limited by up to four boolean search fields and filtered by existence of transposon mutants and human homologs.