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Category: Completed Research Forum: Outsmart Ebola Together Thread: Welcome to the project! |
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Thread Status: Active Thread Type: Sticky Thread Total posts in this thread: 66
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Former Member
Cruncher Joined: May 22, 2018 Post Count: 0 Status: Offline |
Dear World Community Grid volunteers,
----------------------------------------Welcome to the Outsmart Ebola Together project! We are excited to have you help in our search for a cure for this deadly disease. We have analyzed the virus and now know the molecular structures of its key proteins. These structures show us the virus's weak points and where we can target new drugs. Now we can use computer software to test whether any of millions of different chemical compounds might be able to disable the virus and block infection. While this kind of computational screening helps us arrive at new leads faster than wet-lab research alone, the amount of computer time required is enormous. That is where you and World Community Grid can greatly speed up this phase of the research, making use of spare processing power from your computing devices. We are initially running a screening for compounds that attack a surface protein of Ebola, which it uses to enter and infect a cell. If a compound can be found to disable this protein, then this may become a good lead for a drug which can cure a patient with the disease. Later we plan on screening for candidate compounds that may be able to disable newly discovered “shape-shifting” proteins. Your computing power will be making a valuable contribution to this new area of research and helping make a difference in the fight against Ebola. Our goals for the Outsmart Ebola Together project are to: • Screen millions of compounds from multiple library databases against critical Ebola virus targets. • Identify the best candidates and perform further laboratory tests on those to identify promising drug leads for effective Ebola treatment. • Provide the results to other scientists around the world who are working to fight Ebola. You can find more in-depth information and explanations about the project here: < https://secure.worldcommunitygrid.org/research/oet1/details.do > We hope you join our project and also consider helping with our crowd-funding effort at < https://www.crowdrise.com/CUREEBOLA >. which is helping us fund this research much more quickly than through limited conventional funding channels. We greatly appreciate your help with this project to help with the urgent need to find a cure for Ebola. Erica Ollmann Saphire and team. [Edit 1 times, last edit by uplinger at Dec 5, 2014 4:06:43 AM] |
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twilyth
Master Cruncher US Joined: Mar 30, 2007 Post Count: 2129 Status: Offline Project Badges: |
Just out of curiosity, I googled Ebola ligands and found this which seems to be a drug that mimics the cellular receptor that Ebola uses as its entry point.
----------------------------------------Is that sort of how you see the drugs being screened working or in addition to just binding to the virus, would they also have the ability to damage it in some way? I was also curious about how variable the surface proteins are between different strains and between families like say Marburg and Ebola. Any general info you could provide would be appreciated and speaking for myself, it's wonderful to have such a world renown organization as Scripps here at WCG. |
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johncmacalister2010@gmail.com
Veteran Cruncher Canada Joined: Nov 16, 2010 Post Count: 799 Status: Offline Project Badges: |
Very happy this is in production and I will process as many WUs as possible. Between this, cancer and malaria, my computers are busy.
----------------------------------------crunching, crunching, crunching. AMD Ryzen 5 2600 6-core Processor with Windows 11 64 Pro. AMD Ryzen 7 3700X 8-Core Processor with Windows 11 64 Pro (part time) |
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ThreadRipper
Veteran Cruncher Sweden Joined: Apr 26, 2007 Post Count: 1320 Status: Offline Project Badges: |
Glad to contribute!
----------------------------------------Join The International Team: https://www.worldcommunitygrid.org/team/viewTeamInfo.do?teamId=CK9RP1BKX1 AMD TR2990WX @ PBO, 64GB Quad 3200MHz 14-17-17-17-1T, RX6900XT @ Stock AMD 3800X @ PBO AMD 2700X @ 4GHz |
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Cmdrd
Advanced Cruncher Canada Joined: Mar 29, 2013 Post Count: 92 Status: Offline Project Badges: |
Welcome to the WCG! Hopefully we can get this project crunched in a decent amount of time for you guys!
----------------------------------------AMD Ryzen R7 1700 (8 cores/16 threads)@3.85 GHz, 32 GB RAM 7x Dual Intel Xeon E5-2640 (2 x 6 cores/12 threads)@2.5 GHz, 256 GB RAM |
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theodolite
Advanced Cruncher Joined: Apr 11, 2014 Post Count: 119 Status: Offline |
Can you tell us when the volume of WU is going to become reasonable?
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Falconet
Master Cruncher Portugal Joined: Mar 9, 2009 Post Count: 3295 Status: Offline Project Badges: |
Can you tell us when the volume of WU is going to become reasonable? When the WCG beta-tests an updated app that allows checkpointing on the workunits that go long periods of time without one. When that is released into production, the amount of workunits available will increase. 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 Dec 5, 2014 8:35:57 PM] |
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littlepeaks
Veteran Cruncher USA Joined: Apr 28, 2007 Post Count: 748 Status: Offline Project Badges: |
It looks like everyone is being pushed to fast-track Ebola vaccine and medicine development. Does this project have a timeline with milestones?
----------------------------------------[Edit 1 times, last edit by littlepeaks at Dec 5, 2014 11:05:06 PM] |
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Former Member
Cruncher Joined: May 22, 2018 Post Count: 0 Status: Offline |
Twilyth,
Thanks for bringing that press release to my attention. The advantage of the WCG is sufficiently massive computing power that we can sample an extremely large area of chemical space. We may find molecules that are similar to those in the press release or those that are different. There isn't any structural description in the press release, so I don't know yet what that chemical is or what amount of testing has been done beyond in silico. I have, however, reached out to that company to get samples of their compound to see if it binds our GP and works in our wet-lab assays - the proof of function has to be in those biological assays. They mention they have used structural information on the GP and the receptor to design them. However, to my knowledge, no structural information on the receptor or how it binds GP is yet in existence - this is a topic my lab is working very hard on. Also, a structure of the receptor-binding form of GP is not yet publicly available either. My lab just solved it and we are writing it up for publication. It is being used as part of the WCG search, but that structure is currently unique to my lab. The filovirus family contains a number of viruses. In that family, the genus ebolavirus contains five viruses: Ebola virus, Sudan virus, Bundibugyo virus, Taï Forest virus, and Reston virus. The genus marburgvirus contains the one Marburg virus. The genus cuevavirus contains Lloviu virus which was discovered in bats in a cave in Spain. The different viral species (Ebola vs Sudan vs Marburg, for example) are quite different in protein sequence. The ebolaviruses are about 50% different in GP. Ebola and Marburg are about 70% different. The receptor-binding site, however, is quite conserved, so this is a key target for us to learn how to develop broad-spectrum anti-filovirus compounds. Scientifically, a "strain" is the version of each of these species that emerged during different outbreaks. For example, there is the 1995 Kikwit strain of Ebola virus and the 2014 Guinea strain of Ebola virus. Historically, strains have varied very little. 1976 Ebola virus had only a few differences from 2003 Ebola virus. 2014 West African Ebola virus is the most different yet - at leads 55 amino acid changes throughout the genome. However, this is still vastly less variability than we have seen in HIV or influenza during the same time period. So, wherever Ebola and Marburg lurk in the natural world between human outbreaks, they are not subject to very much selection. Sequences from the 2014 Central African outbreak are similar to historical Ebola viruses. The differences that have been observed in GP in West Africa concentrate in the variable, disordered parts of the GP. We are considering both West African and Central African sequences in this project just in case, but I don't yet think that these variations will change the initial targets of the WCG project. Thanks for your interest! |
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twilyth
Master Cruncher US Joined: Mar 30, 2007 Post Count: 2129 Status: Offline Project Badges: |
Wow. That was great. Thank you for taking the time to go into so much detail. I had to read that a few times to make sure I got everything. I also re-read the press release. From both I gather that there are changes in the configuration of the glycoprotein and/or receptor that occur during binding that will be important in finding good drug candidates.
----------------------------------------Anyway, again, thank you and please let us know when you have a publication date. The article will probably be over our heads but hopefully we'll at least be able to make through the abstract. Cheers! |
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