Which databases are used for OmicsNet?

  • PPI: IntAct, InnateDB, STRING, HuRI
  • TF-gene regulation: JASPAR, ENCODE, TRRUST
  • miRNA-gene regulation: miRBase, TarBase
  • Protein-metabolite interaction: KEGG, Recon 2
  • MS annotation: HMDB, PubChemLite, KEGG.
  • Taxa metabolic potential prediction: EMBL and AGORA genome-scale metabolic models (GEMs).
  • SNP annotation: PhenoScanner, VEP, ADmiRE and SNP2TFBS.

More details on these databases are provided in the analysis page.