BAGIM:
Boston Area Group for Informatics and Modeling
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Public Databases:
Binding DB
Broad Institute Databases
ChemSpider
NCBI Gene Expression Omnibus (GEO)
NCBI PubMed
NCBI PubMed Central
PubChem
RCSB Protein Data Bank (PDB)
Swiss-Prot
Open Source Software:
Chemistry Development Kit (CDK)
JMol
Open Babel
PyMol
Cheminformatics / Computational Chemistry Software:
Advanced Chemistry Development
Accelrys
CambridgeSoft
Cambridge Crystallographic Data Centre (GOLD)
ChemAxon
Chemical Computing Group
EduSoft
IDBS
MolSoft
OpenEye Scientific Software
Schrodinger
Spotfire
SimBioSys
Symyx
Talete - Dragon QSAR Descriptors
Tripos
UCSF-DOCK