|
Get MCL clusters that contain proteins of a group of genomes.
Description:
Retrieve all MCL 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 depending on the number of clusters to retrieve
(e.g., retrieving all 41,100 clusters with filamentous plant pathogens takes about 15 minutes,
whereas the other two examples take about 5-10 minutes to retrieve all 17,800 and 10,200 clusters).
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 |
non pathogen |
yeast |
pathogen |
dimorphic |
plant pathogen |
filamentous |
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 MCL 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 Mcl
Cluster analysis - Get the number of proteins for each genome in a given MCL cluster. can be executed which will take the chosen
cluster as input. |
e-Fungi has been funded by the BBSRC Bioinformatics and E-science Programme II
|