This repository contains the code to generate Entity MeSH Co-occurrence Network (EMCON).
- Python 3.6+
- MongoDB 3.5+
Data can be downloaded from the sources below:
| gene or gene product database | download link |
|---|---|
| UniProt/SwissProt | http://www.uniprot.org/downloads |
| UniRef50 | http://www.uniprot.org/downloads |
| Reactome | https://reactome.org/download-data |
| CTD | http://ctdbase.org/downloads/ |
| RGD | ftp://ftp.rgd.mcw.edu/pub/data_release/ |
| MGI | http://www.informatics.jax.org/downloads/reports/index.html |
| gene2pubmed | ftp://ftp.ncbi.nlm.nih.gov/gene/DATA |
| GeneRIF | ftp://ftp.ncbi.nih.gov/gene/GeneRIF/ |