Table 1.
Databases related to network pharmacology
| Database/ software category | Name | Description |
|---|---|---|
| Herbs/Compound | TCMSP | A systematic pharmacology database for finding and screening compounds, targets in Herbs |
| HERB | A high-throughput experiment and reference-guided database of traditional Chinese medicine | |
| TCMBank | It provides standardized information about traditional Chinese medicines, ingredients, and establishes six pairs of relationships | |
| HIT | Herbal Ingredients' Targets Database is a comprehensive and fully curated database to complement available resources on protein targets for FDA-approved drugs as well as the promising precursors | |
| ETCM | A comprehensive database of herbal ingredients, herbs and formulations, predictive target genes, and systematic analysis | |
| TCMID |
A comprehensive database providing information and connecting TCM and modern life sciences |
|
| CMAUP | Collective Molecular Activities of Useful Plants provides collective molecular activities of useful plants, human target proteins, Gene Ontology, KEGG pathways, and their relations to human diseases | |
| YaTCM | It provides comprehensive biologically relevant information on isolated TCM compounds, including prescriptions, herbs, ingredients, definite or putative protein targets, pathways, and diseases | |
| TCM database@Taiwan | Non-commercial TCM database for screening Chinese medicine compounds | |
| PubChem | A chemical database with information on small molecules as well as some large molecules | |
| Gene/ Protein | STRING | A database focusing on protein–protein associations |
| UniProt | A freely accessible protein sequence and annotation database | |
| Disease | Drugbank | A comprehensive database of molecular information on drugs, mechanisms of action, interactions, and targets |
| OMIM | A daily updated database of human genes and genetic phenotypes | |
| GeneCards | A comprehensive database providing annotation information on human genes | |
| DisGeNET | A comprehensive database providing relationships between genes and variants associated with human diseases | |
| TTD | A database to provide information about the targets, pathways, and disease together with the corresponding drugs directed at the targets | |
| Functional annotations | DAVID | Database providing a web server for functional annotation, visualization, and integrated discovery of gene lists |
| Metascape | A Database for gene annotation and analysis resource | |
| KEGG | Kyoto Encyclopedia of Genes and Genomes is a database resource for understanding high-level functions and utilities of the biological system |