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World Community Grid Forums
Category: Completed Research
Forum: Human Proteome Folding
Thread: HPF1 -> HPF2 |
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Thread Status: Active Total posts in this thread: 27
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Former Member
Cruncher Joined: May 22, 2018 Post Count: 0 Status: Offline |
hahaha, after i wrote the post i thought someone would say conspiricy theory...
no conspiricy theory here, i'm just a little sceptical when i feel people are not being totally honest. i feel that we were led to belive the first phase would be done a long time ago. |
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Former Member
Cruncher Joined: May 22, 2018 Post Count: 0 Status: Offline |
Hi Darko S,
Now that we have HPF1 set up, we can always dump another genome into the hopper and crunch it. This is a useful activity that gives us a perpetual supply of work units for members with 120 MB RAM. FAAH requires 250 MB and already we have pulled several compounds from Phase II because they used 50 MB more than usual, causing computers with only 250 MB to page constantly. And HPF2 runs on 512 MB over at Rosetta@home. It is a real problem, finding meaningful work for small computers. But HPF1 is useful. Each new species that we crunch brings in a new set of scientists whose research can then be applied to the analogous protein networks in all the other species. And Baker Lab has been making use of 'homologous' proteins across species. The protein homologs produce many different predicted structures. But only those structures with similar surfaces that will perform the same interactions are likely. So the multi-species view increases our resolution and lets us zoom in on just a few likely structures. There is no set end to HPF1. When we stop running it, it will be because we do not want to juggle too many projects at once. Otherwise, we could run it for a small percentage of daily work units for years as new genomes are released. Lawrence |
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depriens
Senior Cruncher The Netherlands Joined: Jul 29, 2005 Post Count: 350 Status: Offline Project Badges: 
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It really is "update-time" on the WCG. Very interesting. It would be great if we could have these kinds of simple explanation more often. That really motivates me personally.
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Former Member
Cruncher Joined: May 22, 2018 Post Count: 0 Status: Offline |
we are within a week of submitting the first paper ...
please remember that the calculation on the grid is the 1st step out of a 20 step process resulting in a pub. We also have to make sense of the data, integrate it into some sort of biological conclusion or its worthless. |
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Former Member
Cruncher Joined: May 22, 2018 Post Count: 0 Status: Offline |
there is no: "predicaments about finishing HPF1"
we expanded the project by ~50 genomes ... this made the calc take longer and the calculation has to finish before I can write the paper as scientific journals have the high standard that you have to do something before you talk about it... there has already been a pub resulting from the project, one in preparation and more to come this summer. ... but expanding the project and updating the human gene models takes time. |
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Former Member
Cruncher Joined: May 22, 2018 Post Count: 0 Status: Offline |
A year and a half ago, when I first joined the WCG, I used to pay pretty close attention to the progress. I imagined that we could produce some dramatic results pretty quickly if we all were diligent about making our computers available.
Well, the results are anything but dramatic; a mountain of data to be mined by scientists that will someday make the world a better place. I've learned not to bird-dog the project, just let my computers run day and night and take it on faith that it's making a difference. My 'run time' is one year, three hundred days. Lately, I don't even think much about it happening, just let it run. It doesn't cost much in electricity and I'm sure that together with the rest of you-all, we're making the world a better place. Thanks to rbonneau and all for their hard work. |
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Former Member
Cruncher Joined: May 22, 2018 Post Count: 0 Status: Offline |
Well, now we're seeing results, we should see a steady stream of observations, papers and data from HPF 1 and FAAH Phase 1 while HPF 2 and FAAH Phase 2 proceed. And because the projects are continuing, I'm sure there will be a lot of people tuning in to keep track of what's going on.
When WCG have added a couple more projects, there should be enough news coming in to keep the most avid WCG fan happy. The results aren't always going to be easily accessible, or easy to understand. This makes it all the better when the scientists give us the "For Dummies" version. |
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