Developing resources to INDUS project

since 2003-10-22

This page include some useful sources for software developing for INDUS system.

Send me your finding or comments

Open Source

also see my reference: Open Source Project of Bioinformatics

• Ontology
• XMLEditor : a simple XML editor
• OWL API
• KAON : an open-source ontology management infrastructure targeted for business applications
• OilEd :
• Protégé :
• PDB Accessing
• WebMol
• MolSurfer
• JMol
• OpenMMS
• PDBase: A Relational Database Expression of Macromolecular Structure Data
• XmlConvert: An XML Expression of Macromolecular Structure Data
• The Molecular Biology Toolkit (MBT)  

Protein Databases

• ExPASy
• SwissProt: Annotated Protein Squence
• Prosite: Motif database
• How to create HTML links to services on ExPASy
• PDB: Protein Stucture Database
• Gene Ontology 2 PDB: search the Protein Data Bank with GO terms [ GO2PDB mapping file , plain text]
• PDB GOA: GO annotations to PDB entries  [ PDB2GO mapping file , pz]
• GO: Gene Ontology,  dynamic controlled vocabulary that can be applied to all organisms

DNA Databases

• GenBank/DDBJ/EMBL :

Acticles for softwares

• Ontology Building: A Survey of Editing Tools
• A survey on ontology tools: OntoWeb: Ontology-based Information Exchange for Knowledge Management and Electronic Commerce D2.2 Successful Scenarios for Ontology-based Applications

Papers

• Current Work in AI lab