Index  | Recent Threads  | Unanswered Threads  | Who's Active  | Guidelines  | Search
 

Quick Go »
No member browsing this thread
Thread Status: Active
Total posts in this thread: 3
[ Jump to Last Post ]
Post new Thread
Author
Previous Thread This topic has been viewed 1184 times and has 2 replies Next Thread
WCGAdmin
World Community Grid Admin
Joined: Jun 9, 2020
Post Count: 167
Status: Offline
Reply to this Post  Reply with Quote 
Open-source software program helps power 30 years of progress in computational research

AutoDock, the software program that powers OpenPandemics and other World Community Grid projects, was created 30 years ago at Scripps Research. Learn more about this powerful software in this article and the attached, recently-published research paper.

https://www.worldcommunitygrid.org/about_us/viewNewsArticle.do?articleId=645
[Sep 14, 2020 4:50:03 PM]   Link   Report threatening or abusive post: please login first  Go to top 
Former Member
Cruncher
Joined: May 22, 2018
Post Count: 0
Status: Offline
Reply to this Post  Reply with Quote 
Re: Open-source software program helps power 30 years of progress in computational research

Super, 30 years is a long time in software world, but maybe COBOL ;o). Curiously, no mention of the Autodock VINA evolution out of the same SCRIPPS store, which the scientists mentioned to be superbly faster, but maybe with a more limited search domain.)
----------------------------------------
[Edit 1 times, last edit by Former Member at Sep 14, 2020 5:04:59 PM]
[Sep 14, 2020 5:02:17 PM]   Link   Report threatening or abusive post: please login first  Go to top 
Falconet
Master Cruncher
Portugal
Joined: Mar 9, 2009
Post Count: 3294
Status: Offline
Project Badges:
Reply to this Post  Reply with Quote 
Re: Open-source software program helps power 30 years of progress in computational research

Thanks for the informative paper. Quite interesting.

I suppose this small portion on page 13 could be considered a small summary of the FighAIDS@home projects results:


"Over these past 20 years, application of the AutoDock suite (AD4and ADVina) on FAAH and local platforms has informed and broadened the approaches to HIV therapeutic development. We have examined the role of protein flexibility in allosteric inhibition in HIV protease 49 and integrase 50 using a panel of molecular dynamics snapshots; evaluated new broadly-based (HIV/FIV) protease inhibitors 51, identified new targets for drug development such as HIV capsid 52, and explored the mechanisms of HIV drug resistance evolution 53. With massive numbers of docking results from large FAAH virtual screens, we have utilized machine learning on data generated by FAAH to improve the selection criteria for true positives in the screening 54. In order to further refine AutoDock screening results with more intensive free energy calculations, FAAH has now started a second phase in collaboration with the Levy laboratory, in which molecular dynamics simulations are used to provide better estimates of the free energy of binding 55"


Numbers in bold are the references to the papers, which you can check on the document.
----------------------------------------


AMD Ryzen 5 1600AF 6C/12T 3.2 GHz - 85W
AMD Ryzen 5 2500U 4C/8T 2.0 GHz - 28W
AMD Ryzen 7 7730U 8C/16T 3.0 GHz
----------------------------------------
[Edit 1 times, last edit by Falconet at Sep 26, 2020 12:05:24 PM]
[Sep 26, 2020 12:04:40 PM]   Link   Report threatening or abusive post: please login first  Go to top 
[ Jump to Last Post ]
Post new Thread