Expand the service to be able to search nodes other than GeneNode

[tanksha]

The current annotation service only accepts a Gene symbol and annotates with (or searches for) its GO terms, pathways and biogrid interactions. These needs to be expanded to be able to annotate proteins, GO terms, Pathways, and ChEBI's as well.

If the input is Protein, search and return the following

• Its GO terms
• the Pathways the given protein is in and the other proteins in the pathway
• the protein interaction (from BIOGRID or STRING, depending on which one we used)
• Its name, definition, location

If the input is a ChEBI, search and return

• Its pathways
• Its part, Parents, role ... (from GO-plus)
• Its name, definition, location

If the input is Pathway, search and return

• Member Genes
• Member Proteins
• Member ChEBI's
• Its name, definition

If the input is GO term, search and return

• Member genes
• Member proteins
• Parent GO terms
• GO terms regulated/regulated_by, part_of and has_part ... (from GO-plus)
• Its Namespace, name, definition

@mjsduncan do you have something to add?

[Habush]

@tanksha How about expanding the service to include drug databases?

[mjsduncan]

@Habush that is covered under small molecules but having database specific filters as drug databases are added would be useful

[tanksha]

@leungmanhin query expansion to include searching for non-gene nodes has been listed above, you can start with it. We will have the following functions annotate-molecules (which will accept molecules like protein, chebi, coding RNA, non-coding RNA and ) annotate-go (when the input are GO terms annotate-pathways (when the inputs are pathways Reactome, SMP, etc..) ...