Table 2.
Database and tools for network modeling and target identification
| S. No. | Database |
|---|---|
| 1 | COBRA (Constraint-based reconstruction and analysis) |
| 2 | Cell Designer |
| 3 | Cytoscape (Software tool for analyzing networks) |
| 4 | JDesigner (Graphical modeling for biochemical networks) |
| 5 | COPASI—COmplex PAthway SImulator |
| 6 | iPATH—Interactive Pathways Explorer |
| 7 | SABIO-RK (Relational Database for Biochemical Kinetics) |
| 8 | SYCAMORE (Computational Modeling and simulation tool) |
| 9 | TIde: Target Identification (Scanning drug targets in network models) |
| 10 | Drugbank (drug and drug target database) |
| 11 | Matador (Drug target database) |
| 12 | PDTD (Potential Drug Target Database) |
| 13 | DIP (Database of Interacting Proteins) |
| 14 | STITCH (Chemical Association networks) |
| 15 | SuperTarget (Web source for analyzing drug-target interaction) |
| 16 | TDR: Targets Database |
| 17 | TTD: Therapeutic Targets Database |
| 18 | Biomodels.net (Biological Modeling tool) |
| 19 | CellML (XML markup language and Model Repository) |
These databases and tools can be resorted for simulating the models and analysis of the biological networks for drug target identification. Some of the database enlisted here also provide information on several diseases and drugs