Folding @home?

I see that there is a GWJ team already setup for it but no one has done anything.

http://fah-web.stanford.edu/cgi-bin/...

While looking up at the stats it seems the PS3 has some serious number crunching power, about 10x that of a normal PC. In fact, it's already blown out all the PC's combined.

http://fah-web.stanford.edu/cgi-bin/...
http://folding.stanford.edu/FAQ-PS3....

I have five PC's folding and I haven't much of anything since it takes a while compared to the PS3.

WoW, I haven't done folding in quite a few years. Think I might have to hop on the GWJ team and start putting up some numbers.

I just found this team this morning when I tried to create one and found out it already existed. I just thought I'd mention this again for the new PS3 owners the site has gained lately. It's a worthwhile cause and like Edwin says, the PS3 buries most PCs in terms of how fast it can chew through work units. The team number is 48357. All you have to do is punch that into the utility and you're in.

I suppose my shiny new Quadcore could lend a hand.

I'm all setup and running.

Me too. Only not a Quadcore, you showoff.

It doesn't make for much showing off so far. I start the program, it runs for a while, I leave the computer, and when I come back it's just magically not running anymore. No error message windows leftover or anything. Just gone.

This is happened two of the three times I've fired the program up. Ah well.

What version are you running? Command-line Linux version runs well for me.

My PS3 does crank out the work, appears faster than my dual core 6600 overclocked to 3.2 Ghz. had to stop the PC version though, had the side effect of borking my dvd so i couldn't see any discs, weird.

Thread revival!

Well.. I ended up with a PS3 so whenever I'm not watching a blu-ray it will probably be running the Folding client.

Finished work units here I come.

I'm on my way to the top of our team and ain't no one stoppin' me!

Ok, my floor has 4 PS3's. I'll see what I can do.

You guys know this is how Skynet starts, right? =P

Queue Kataragi: "Connect 100 PS3's together and it becomes self aware!"

NVIDIA: The way you're meant to be nuked!

Has there been any scientific breakthroughs attributed to [email protected] ever since it started in what, year 2000 ?

You know... just curious.

I'm not sure about [email protected] but another project I used to be involved in actually closed because they ran out of data to process. They claimed that research into several subjects had advanced a number of years. Like most long-term research, results are not necessarily immediate but they are still plausible.

Research is never, ever wasted. What happens is that the data, if it doesn't immediately show any use, is archived, and it becomes ... well, sort like fertile ground, from which other discoveries can spring. Later scientists will notice something, and then go back and look at earlier data, and then figure out something cool.

As Asimov said, the most exciting phrase in science isn't "Eureka!", but rather, "Hmm, that's funny."

Just joined, but my PS3 restarts every time I exit [email protected] I googled it and it seems to be a somewhat common problem.

EDIT: I have found the "solution". The PS3 restarts when I exit [email protected] by using the PS button but it exits normally if I use the circle button. Weird.

Yeah, that restarting behavior is by design. When you quit anything with the PS button menu, it just soft resets the system.

Here are the published results so far:

TABLE OF CONTENTS

(Reverse chronological order)
- 54.Calculation of the distribution of eigenvalues and eigenvectors in Markovian state models for molecular dynamics
- 53. Heterogeneity Even at the Speed Limit of Folding: Large-scale Molecular Dynamics Study of a Fast-folding Variant of the Villin Headpiece
- 52. Control of Membrane Fusion Mechanism by Lipid Composition: Predictions from Ensemble Molecular Dynamics.
- 51. Persistent voids: a new structural metric for membrane fusion.
- 50. Protein folding under confinement: a role for solvent.
- 49. Automatic State Decomposition Algorithm.
- 48. [email protected]: Petascale Distributed Storage
- 47. Predicting structure and dynamics of loosely-ordered protein complexes: influenza hemagglutinin fusion peptide.
- 46. A Bayesian Update Method for Adaptive Weighted Sampling.
- 45. Local structure formation in simulations of two small proteins.
- 44. Kinetic Definition of Protein Folding Transition State Ensembles and Reaction Coordinates.
- 43. Parallelized Over Parts Computation of Absolute Binding Free Energy with Docking and Molecular Dynamics.
- 42. Folding Simulations of the Villin Headpiece in All-Atom Detail.
- 41. Ensemble molecular dynamics yields submillisecond kinetics and intermediates of membrane fusion
- 40. Electric Fields at the Active Site of an Enzyme: Direct Comparison of Experiment with Theory.
- 39. A novel approach for computational alanine scanning: application to the p53 oligomerization domain.
- 38. Validation of Markov state models using Shannon's entropy.
- 37. On the role of chemical detail in simulating protein folding kinetics.
- 36. Nanotube confinement denatures protein helices.
- 35. The solvation interface is a determining factor in peptide conformational preferences.
- 34. Can conformational change be described by only a few normal modes?
- 33. How large is alpha-helix in solution? Studies of the radii of gyration of helical peptides by SAXS and MD.
- 32. Error Analysis in Markovian State Models for protein folding.
- 31. Direct calculation of the binding free energies of FKBP ligands using the Fujitsu BioServer massively parallel computer.
- 30. A New Set of Molecular Mechanics Parameters for Hydroxyproline and Its Use in Molecular Dynamics Simulations of Collagen-Like Peptides.
- 29. Comparison of efficiency and bias of free energies computed by exponential averaging, the Bennett acceptance ratio, and thermodynamic integration.
- 28. Solvation free energies of amino acid side chain analogs for common molecular mechanics water models.
- 27. Foldamer dynamics expressed via Markov state models. I. Explicit solvent molecular-dynamics simulations in acetonitrile, chloroform, methanol, and water.
- 26. Foldamer dynamics expressed via Markov state models. II. State space decomposition.
- 25. Unusual compactness of a polyproline type II structure.
- 24. How well can simulation predict protein folding kinetics and thermodynamics?
- 23. Empirical Force-Field Assessment: The Interplay Between Backbone Torsions and Noncovalent Term Scaling.
- 22. Exploring the Helix-Coil Transition via All-atom Equilibrium Ensemble Simulations.
- 21. Does Water Play a Structural Role in the Folding of Small Nucleic Acids?
- 20. Dimerization of the p53 Oligomerization Domain: Identification of a Folding Nucleus by Molecular Dynamics Simulations.
- 19. Using path sampling to build better Markovian state models: Predicting the folding rate and mechanism of a tryptophan zipper beta hairpin.
- 18. Simulations of the role of water in the protein-folding mechanism.
- 17. Trp zipper folding kinetics by molecular dynamics and temperature-jump spectroscopy.
- 16. Does Native State Topology Determine the RNA Folding Mechanism?
- 15. Structural correspondence between the alpha-helix and the random-flight chain resolves how unfolded proteins can have native-like properties.
- 14. Equilibrium Free Energies from Nonequilibrium Measurements Using Maximum-Likelihood Methods.
- 13. Extremely precise free energy calculations of amino acid side chain analogs: Comparison of common molecular mechanics force fields for proteins.
- 12. Solvent Viscosity Dependence of the Folding Rate of a Small Protein: Distributed Computing Study.
- 11. Insights Into Nucleic Acid Conformational Dynamics from Massively Parallel Stochastic Simulations.
- 10. Multiplexed-Replica Exchange Molecular Dynamics Method for Protein Folding Simulation.
- 9. The Trp Cage: Folding Kinetics and Unfolded State Topology via Molecular Dynamics Simulations.
- 8. Absolute comparison of simulated and experimental protein-folding dynamics.
- 7. Native-like Mean Structure in the Unfolded Ensemble of Small Proteins.
- 6. Simulation of Folding of a Small Alpha-helical Protein in Atomistic Detail using Worldwidedistributed Computing.
- 5. [email protected] and [email protected]: Using distributed computing to tackle previously intractable problems in computational biology.
- 4. Atomistic protein folding simulations on the submillisecond timescale using worldwide distributed computing.
- 3. b-Hairpin Folding Simulations in Atomistic Detail Using an Implicit Solvent Model.
- 2. Mathematical Foundations of ensemble dynamics.
- 1. Screen savers of the world, Unite!

I summon the forth from the dead!

After countless hours of work tweaking my first dedicated [email protected] machine is soaring: 100,974.46 PPD atm

I have the parts for a second equivalent rig but I still have to put it together, should be quicker now that I've done it once.

V7 client is finally live.

We have a team? Awesome, I'll be switching over when I upgrade the client later tonight

Finally have it running, I've been meaning to do this for a while.

I learned of the existence of GWJ by seeing it on the Folding @ Home team lists.