I have a list of genes related to a disease. Now I would like to apply these Multiple genes and have a network predicting other probable causative genes. I have already applied GENEMANIA and STRING The question is: Is there any other free Network system for prediction?
GeneMania or STRING is not ideal for inferring diseases associated with a gene list.
You can use one of the following tools/resources for diseases enriched in a disease list:
- Enrichment analysis using Disease Ontology (DO) / DO-Lite. You can Functional Disease Ontology server for enrichment analysis using DO
DAVID (Expand the Diseases tab and select options. This is mainly for genetic diseases. Default option is OMIM, also available GDA database and GDA class)
Other options: Human Phenotype Ontology, GWAS association or any other custom disease-gene annotation/association to perform a standard enrichment analysis. Some of the key aspects of enrichment analysis is discussed here.