Description:

Retrieve all OrthoMCL clusters that contain proteins of a group of genomes. To run the query, provide input for any one or any combination of the input fields.

Runtime:

Can take up to 5-15 minutes to complete.

Input:

Details

Pathogenicity	Specify whether the chosen genomes should be non pathogens, pathogens, or more specific animal or plant pathogens. To retrieve a list of possible values that can be used as input for this query, the button "Key Words..." can be used.
Growth Form	Specify the growth form of the chosen genomes, e.g., filamentous or yeast;to retrieve a list of possible values that can be used as input for this query, the button "Key Words..." can be used.

Examples

Pathogenicity	Growth Form
animal pathogen	filamentous
non pathogen	fission
plant pathogen	yeast

Output:

Description

Information about the content of the clusters found, such as, which species the proteins in a cluster belong to

Details

Cluster ID	Identifier of the OrthoMCL cluster
Genome	Genome that has been provided as input
# Proteins	Number of proteins in the cluster
# Genomes	Number of genomes with proteins in the cluster
Non pathogenic fungi	A list of the non pathogenic fungi with proteins in the cluster
Animal pathogens	A list of the animal pathogenic fungi with proteins in the cluster
Plant pathogens	A list of the plant pathogenic fungi with proteins in the cluster
Filamentous fungi	A list of the filamentous fungi with proteins in the cluster
Yeast like fungi	A list of the yeasts with proteins in the cluster
Navigation	Links that enable the retrieval of the genomes with proteins in the cluster as well as the proteins in the cluster. Furthermore, the query OrthoMcl Cluster analysis - Get the number of proteins for each genome in a given OrthoMCL cluster. can be executed which will take the chosen cluster as input.