1) Message boards : News : BOINC merchandise by the Science Commons Initiative (Message 2005) Posted 23 Feb 2023 by Natalia Post: Dear participants, There is a wonderful new beginning started by the Science Commons Initiative. They launched a web store selling BOINC-related merchandise. SiDock@home is already on board :) We support this idea and hope it will help more people to know about BOINC and get interested in BOINC projects! It will also contribute to the development of BOINC as 50% of the profits will go to the BOINC Development Fund (100% in special cases). Another 50% of the profit will go to the project as a donation. With best wishes, team of SiDock@home

2) Message boards : News : BOINC Census 2022, be counted! (Message 1985) Posted 10 Feb 2023 by Natalia Post: An update from the Science Commons Initiative: BOINC Census Released!

3) Message boards : Science : Other uses of docking than viruses? (Message 1943) Posted 24 Jan 2023 by Natalia Post: Hello! GPU version of CmDock is under development. The latest CPU version is CmDock v0.2.0, December 2022.

4) Message boards : News : Merry Christmas! (Message 1776) Posted 24 Dec 2022 by Natalia Post: Dear participants, We wish you a merry Christmas and a happy New Year! With your help, we have performed a lot of computer modeling. We are going to continue, and believe the results will lead to advances in drug development! For now, we have a fresh new release of CmDock and will employ it starting from the next target. Here is an illustration of the modeling performed in the project, visualized with PyMOL. You can see a large molecule (this is the target, TMPRSS2 protein) with a molecule many times smaller. The small molecules are ligands, each of them can interact with the target in its own way, with its own binding energy. The more precisely the ligand binds to the target, the higher the chance that it will be able to change the functioning of the large molecule. For example, the TMPRSS2 enzyme shown in the image is necessary for a chemical reaction allowing the coronavirus to enter the body cells and, accordingly, a substance that can suppress the normal operation of this enzyme can make it difficult or block the spread of the coronavirus in it. During the modeling performed on your computers, various ligands from the library are tested, and the best ones are selected to process on next stages of drug development. All the best, Natalia, Marko, hoarfrost, Črtomir

5) Message boards : News : BOINC Census 2022, be counted! (Message 1761) Posted 17 Nov 2022 by Natalia Post: The BOINC Census is a yearly effort aimed at finding out who uses BOINC, what they like about it, and what changes they want to see in the future. Filling out the census is a great way to support this project, the wider BOINC community, and have your input heard for future bug bounties. The census is sponsored by the Science Commons Initiative, and the results will be published in an aggregate, anonymized fashion at the completion of the census. Please take 5 minutes to fill out the census at https://app.fillout.com/flow/esDGuRswWfus

6) Message boards : News : Target 21: corona_TMPRSS2_v1 (Message 1760) Posted 17 Nov 2022 by Natalia Post: Dear Participants, TMPRSS2 is a type II transmembrane protease with broad expression in epithelial cells of the respiratory and gastrointestinal human tracts. It is a cofactor in SARS-CoV-2 entry, and primes viral proteins. Namely, TMPRSS2 cleaves the viral Spro to expose the fusion peptide for cell entry. We are therefore examining TMPRSS2 as a promising strategy to block viral infection in a host-directed therapeutic and/or prophylactic manner. This work is also a a part of larger viral-host protease inhibition study campaign. With best wishes, Team SiDock@home

7) Questions and Answers : Windows : Will not queue more than about 4 work units per core despite set for 10 days of work (Message 1716) Posted 24 Aug 2022 by Natalia Post: At the beginning, we followed the list of targets (groups of work units) that was published in the presentation. Today, new targets are selected following the intermediate computational results and new scientific data. For instance, the target PLpro was investigated 4 times instead of 2 planned initially. This is why it is difficult to publish a planned list in advance.

8) Questions and Answers : Web site : Email notification broken (Message 1696) Posted 12 Aug 2022 by Natalia Post: Email notifications should be fixed now, please check.

9) Questions and Answers : Web site : Update Cross-Project ID (Message 1652) Posted 21 Jun 2022 by Natalia Post: Hello, as I gather, only you can fix it at your side. Following this post, you can either (1) ensure your email addresses match across all the projects you signed up to, connect all your projects to one host and wait 'up to 14 days' for the CPIDs to settle. Or (2) follow the steps listed in the post to fix it immediately. Please tell us if you managed to fix it.

10) Message boards : News : Project status: May 2022 (Message 1645) Posted 9 Jun 2022 by Natalia Post: All current targets are SARS-CoV-2. When we switch to Ebola or other virus, we will say so in the news.

11) Message boards : News : Project status: May 2022 (Message 1637) Posted 31 May 2022 by Natalia Post: Dear all, with your help, we have processed 15 targets already! It is a huge computational work, the results of which are being processed by our team and colleagues. We are working on two papers which will be available to the public as early as possible. We also continue computations for next targets. During March, April and May, project's performance was fluctuating around 250 Teraflops. We took this advantage to prioritize SARS-CoV-2 targets on top of the other research. At the end of spring 2022, we are 6426 active participants with 4493 computers. With best wishes, Natalia and the team of SiDock@home

12) Message boards : Number crunching : corona_PLpro_v4 errors (Message 1625) Posted 18 Apr 2022 by Natalia Post: Yes, we will move to quorum of one to avoid duplicated computations. But before that, we need to implement a robust scheme of results validation.

13) Message boards : News : Project status: March 2022 (Message 1607) Posted 26 Mar 2022 by Natalia Post: I must clarify for everyone that the project is a collaboration between Slovenian and Russian scientists. The main server is in Russia, and the Russian part of the team is responsible for the BOINC side. We respect the right of anyone to stop participating by any reason.

14) Message boards : News : Project status: March 2022 (Message 1605) Posted 26 Mar 2022 by Natalia Post: Everyone: please restrain from political discussions in this forum. You can exchange opinions on other platforms. Any personal opinion is not the official position of our project.

15) Questions and Answers : Web site : High activity (Message 1582) Posted 17 Mar 2022 by Natalia Post: Yes, the project experiences a high load. We have upgraded the hard drive just before the pause in World Community Grid, now we are adjusting the filtering of results to obtain less data from the clients.

16) Message boards : News : Technical maintenance on March 14th, 9:00-10:00 UTC (Message 1569) Posted 13 Mar 2022 by Natalia Post: Dear participants, we plan an hour-long break tomorrow, 9:00-10:00 UTC, for technical works. All the best, Team SiDock@home

17) Questions and Answers : Macintosh : Please provide an app for Mac M1 (Apple Silicon / ARM64) (Message 1566) Posted 10 Mar 2022 by Natalia Post: Mac version is still under development, the team is loaded with other work, but we remember about Mac.

18) Questions and Answers : Windows : Project fills CPU use to 100% although "Use at most xx% of CPU time" is set (Message 1564) Posted 9 Mar 2022 by Natalia Post: Hello! Regarding the images, you insert them correctly. The problem seems to be in the hosting you are using.

19) Message boards : News : Technical maintenance on February 14th (Message 1486) Posted 11 Feb 2022 by Natalia Post: Dear all, On February 14th, for about 08:00-20:00 UTC, the project server will be shut down for maintenance. We will upgrade hard drives to support larger loads. All the best, Team SiDock@home

20) Message boards : News : Target 11 - Sprot_delta_v1 (Message 1485) Posted 10 Feb 2022 by Natalia Post: Dear Participants, We continue diligently with the calculations. Now we are breaking through a series of protease studies to explore a new target, the RBD (receptor-binding domain) Sprot domain surface interacting with ACE2. This is the much-discussed spike protein that also contributed to the naming of coronavirus. We focus here on Sprot from the delta variant (B.1.617.2), specifically a Cryo-EM structure of Sprot with an RBD in up conformation. In comparative variant studies, we will try to determine if there is a specific discrimination upon binding of small ligands. This may help us better understand this PPI surface in further studies and even develop a small molecule probes to study these interactions. Thank You all and we look forward to future studies together! With best wishes, Team SiDock@home

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