The Date: 24 May 2016 (Tuesday)
The location: #veteran, IRC (Get help with chat here.)
The Time: 1500 - 1600 PDT (2200 - 2300 UTC, 2300 - 2400 BST, 1800 - 1900 EDT)
The Time Zone Converter: Right this way!
The Topics: Science (with a likely side of Development) chat!
Looking for inspiration? Follow-up on previous topics? Read our previous chats. Add your questions to this post! If you don't have a question yet? Bookmark this post and add questions closer to the event. Science suggestions? Try the forum for feedback first on your idea from other players. Science related bug? Post it in the puzzle comments or repro steps in feedback!
We can't wait to see you there.
Please consider using the Nelder-Mead Simplex Direct Search Method
to improve the performance of the "Center/Align Protein to Density"
button in Electron Density Puzzles. For details see:
http://fold.it/portal/node/993959#comment-32465
Also, if you can give out details about how this button works at
present (source code?), maybe one of us players can help you
make it work better.
Thanks!
Can you use different symbols or shades of boxes on the Rama Map to mark residues with dihedral angles outside their amino acid's preferred (blue, green, yellow, or red colored) ranges? Can you use a 5th color (like white) in the ABEGO color scheme for residues with dihedral angles outside their amino acid's preferred (blue, green, yellow, or red colored) ranges? Items (6) and (6.1) in the posts at and below http://fold.it/portal/node/2002190#comment-32364 discuss these things.
Basically, if a residue has a box in the white part of the Rama Map for its amino acid, please color this residue white in the ABEGO color scheme when you render the protein in 3D.
Thanks!
All of the ideal sheet-sheet loops you have given us with the Rama map turn the same way. Sometimes I want my sheet to turn the other way, and a 4-residue loop is good for this because it has a nearly equal chance of turning one way as the other. Can you give us a sample 4-residue sheet-sheet loop that turns the other way?
Have design puzzle solutions been more realistic since the Rama map came out?
"Currently, only Rosetta is open source, not Foldit."
Rosetta is not open source.
What data do you collect ans store? Do you have a big database with all our movements, the recipes we use, the steps done up to a gaining solution?
Do you track our discussions in a way? (for example keywording out of chat content)?
I suggest you
1) to make the list of these databases available on your site
(this could interest researchers in many different fields)
2) to give an academic access to these (anonymised) big data
one of the agreement would be that Foldit and/or "Foldit players" should be coauthored in the published aggregated results
We are folders and players but many of us also have Scientific skills.
We could contribute to some parallel research about Social aspects of the game, strategies, or even biochemistry etc.
For this, we would need more access to some anonymised Foldit data (like the social survey etc). Of course taking care on the Fair competition aspect (keeping anonymity, keeping strategies "secret" etc).
Do you have plans to allow Citizen Scientists to invest in research on or arround Foldit?
Some players are concerned with the "goal" of their contribution. This is illustrated by the participation rate in puzzles: some high level players only contribute to some appealing challenges like fighting against diseases, etc.
Scientific Research - your job - is partly dependent on (US) government and/or private subsidies and priorities. As volunteer "Research scientists", we might feel concerned about possible outcomes ("good" or "bad") of your results.
