Subgraph of drug to disease
Subgraph of durg or disease
Getting the result
Notes
'Drug-Disease' Network
Extracting the connection network in the human protein-protein interacome network.
The requirement of the 'drug-targets', 'disease-genes' files are presented in the note in the proximity module.
In addtion, a column of symbol must be added in drug-target and disease-gene files, the symbols are used to add labels to the nodes:
disease,entrez_id,symbol
mild neurocognitive disorder,148,ADRA1A
post-traumatic stress disorder,148,ADRA1A
prostate cancer,148,ADRA1A
asthma,1133,CHRM5
...
If there is not a symbol columns, the node will be labelled as it entrez_id.
the 'Drug-Disease Pair' file contains two colums to identify which drug and disease are considered, as:
disease,chemical
atopic dermatitis,mifamurtide
psoriasis,camphor
psoriasis,cannabidivarin
atopic dermatitis,ruxolitinib
atopic dermatitis,fluocinolone acetonide
atopic dermatitis,kifunensine
atopic dermatitis,peginterferon alfa-2a
atopic dermatitis,(r)-3-hydroxytetradecanoic acid
...
The results can be downloaded in the page using the calculation ID.
The result is a zip file, containing edges table files and nodes table files.
A group of edges talbe and nodes table files can be imported in Gephisoftware to generate the drug-disease connection network.
Multiple edges table and nodes table files can be imported with the 'Append to existing workspace' option to generate the connected network of multiple drugs and diseases.
Options:
- 'Inside eges included'--keeping the connections between the target nodes of the same drug or the gene nodes of the same disease
- 'Maximum distance'--the maximum distance from a drug target to a disease gene
Subgraph of drug or disease
Extracting the distribution of the drug targets or disease genes in the human interactome network.
The requirement of the selected file is as the 'drug-targets', 'disease-genes' files presented in the note in the drug-disease network module.
The resutls are zip files, containing groups of edges table and nodes table files corresponding to each drug or disease. which can be imported to Gephi to generate network graphs.