chilampoon
commented
11 months ago hi @mskb01 sorry for the late response, the reactome graphdb is more like for graph relationship exploration, eg how all the proteins/genes/metabolites interact in certain reactions or pathways. You can absolutely try different ways to use the graphdb to achieve your goals either through neo4j or this package. The Reactome main website provides text files for all the instances, events, pathways, interactions, etc, you can find all of them here https://reactome.org/download-data. An alternate option is to use the Reactome API (Content Service) to download files, there's also an R interface to retrieve Reactome objects and return as R dataframes.
Please don't hesitate to reach out if you have any questions.
Hello, Thank you for this excellent package. This is a question, not an issue raised on the package. I am wondering if its possible to retrieve all human gene-gene interactions as a text file from Reactome. Is there an efficient way to do this via the ReactomeGraph4R package? Thanks!