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Revision as of 21:52, 23 May 2024

Welcome to DISI (Disi Is Still Incomplete, "dizzy"), the wiki of the Shoichet Lab and Irwin Lab at UCSF. This wiki aims to document our software tools, databases, protocols and resources related to computational ligand discovery, molecular docking and systems pharmacology as hosted at the domain "docking.org". We hope you find what you are looking for, but if not, it is editable. Just login and edit it and help us improve (please). This wiki aims to serve several constituencies. It remains a work in progress. Tell us how we are doing. For what's new, please see News of changes

Products

Main article Description Notes/Links
DOCK Our molecular docking software There are two main branches. The latest are DOCK 3.8 and DOCK 6.11 dock.docking.org
ZINC Commercially available compounds There are two databases zinc20 zinc22
SEA Similarity Ensemble Approach Drug repurposing, target identification, phenotypic screening. sea.bkslab.org
DUDE Family Benchmarks for docking dude.docking.org/generate
TLDR TLDR is a Ligand Discovery Resource TLDR
Chemistry commons Chemistry commons Chemistry Commons
DOCK Blaster A public access service for docking screens blaster.docking.org

Topics

Databases Molecular Docking Colloidal aggregation Model systems Hit picking party
Systems pharmacology Covalent docking Chemical Space Decoys Excipients

Other topics

Lab members with ssh Non members without ssh Assaying Compound Activity
Run on our servers Run on your servers Set up a lab
programmatic access (API) Software Aggregator advisor

Organizational

Topics Who are you? Idioms Article type Attributes Policies
Categories Tutorials Problems FAQ manuals, as they are

Still haven't found what you're looking for? Try the search bar top right to see if that works...

Outages and Support

We communicate about outages and updates via X. If our servers appear down or broken and we have not communicated this, we would be grateful to be told via jjiteam at googlegroups dot com or my text/voice to +1 (415) 937-1461

If you have a problem or a question, we always like to hear about it. Tell us how we are doing. More about ways to communicate with us. For personalized help, attend Weekly office hours.

Policies, Privacy and all that

We aim to keep confidential information such as passwords secure, but we offer no guarantees. You must use these services at your own risk. See our privacy policy.