Tips and Tricks: Difference between revisions

From Eterna Wiki

m (Adding link)
(15 intermediate revisions by 6 users not shown)
Line 1: Line 1:
Puzzles and lab differ considerably in EteRNA. Tactics and strategies that are effective in one aspect of the game are not guaranteed to help in others.
<p><span style="font-family: helvetica;">Puzzles and lab differ considerably in EteRNA. Tactics and strategies that are effective in one aspect of the game are not guaranteed to help in others.</span></p>
 
<p>&nbsp;</p>
 
<h3><span style="font-family: helvetica;">Puzzles&nbsp;</span></h3>
==== Puzzles ====
<p><span style="font-family: helvetica;">Puzzles in EteRNA vary widely in difficulty. Many solutions can be found quickly, without using every tactic available. The hardest puzzles often employ creative uses of the "rules" that dictate how RNA folds in EteRNA.</span></p>
 
<ul>
Puzzles in EteRNA vary widely in difficulty. Many solutions can be found quickly, without using every tactic available. The hardest puzzles often employ creative uses of the "rules" that dictate how RNA folds in EteRNA.
<li><span style="font-family: helvetica;">[[Creating a good starting sequence]] can help you solve easy puzzles more quickly.</span></li>
 
<li><span style="font-family: helvetica;">[[Placing GC pairs at the end of stacks]] can favor the target folding by lowering the energy of both its stems and loops.</span></li>
 
<li><span style="font-family: helvetica;">Loop [[boosting]] can favor the target folding by lowering the energy of its loops.<br /></span></li>
:* [[Creating a good starting sequence]] can help you solve easy puzzles more quickly.
<li><span style="font-family: helvetica;">Using [[special sequences]] may be required to create certain secondary structures.</span></li>
:* [[Placing GC pairs at the end of stacks]] is often an effective way of lowering energy.
<li><span style="font-family: helvetica;">[[Base Pair Flipping|Exchanging the positions of two paired bases]] can often stabilize long stacks that have mispaired.</span></li>
:* [[Boosting]] can help lower loop energy.
<li><span style="font-family: helvetica;">[[Blocking]] can prevent the formation of undesired base pairs.</span></li>
::* [[Using special sequences]] may be required to create certain secondary structures.
<li><span style="font-family: helvetica;">[[Hidden Instabilities|Deliberately destabilizing unwanted structures]] may be necessary to prevent the formation of undesired loops.</span></li>
:* [[Exchanging the positions of two paired bases]] can often stabilize long stacks that have mispaired.
</ul>
:* [[Blocking]] can prevent the formation of undesired base pairs.
<p>&nbsp;</p>
:* [[Deliberately destabilizing unwanted structures]] may be necessary to prevent the formation of undesired loops.
<h3><span style="font-family: helvetica;">Labs</span></h3>
 
<ul>
==== Labs ====
<li><span style="font-family: helvetica;">Avoid submitting designs with excess [[AU Pair|AU]], [[GU Pair|GU]], or [[GC Pair|GC]] pairs!</span></li>
 
<li><span style="font-family: helvetica;">Avoid long strings of any one base.  Four identical bases in a row seems to be a good limit.</span></li>
 
<li><span style="font-family: helvetica;">Leave all loops as adenine, unless you wish to [[Boosting|boost]] your design. Boosting may or may not be helpful in lab.</span></li>
Avoid submitting designs with excess AU, GU, or GC pairs!
<li><span style="font-family: helvetica;">[[Use of secondary structure prediction programs]] can identify very poor designs, but these programs are of uncertain value in determining which of two reasonable designs is superior.</span></li>
Leave all loops as adenine, unless you wish to boost your design. Boosting may or may not be helpful in lab.Use of secondary structure prediction programs can identify very poor designs, but these programs are of uncertain value in determining which of two reasonable designs is superior.Even Energy Distribution is a hypothesis that stabilizing or destabilizing features should not be concentrated in one area of a lab design.Copying elements from previously successful designs has been moderately effective.
<li><span style="font-family: helvetica;">[[Even Energy Distribution]] is a hypothesis that stabilizing or destabilizing features should not be concentrated in one area of a lab design.</span></li>
<li><span style="font-family: helvetica;">[[Copying elements from previously successful designs]] has been moderately effective.</span></li>
</ul>
<ul>
<br />
</ul>
<h2>See also</h2>
<ul>
<li>[https://docs.google.com/document/d/1PIAmAX2tKwoRMkoitB-P1kWd9JXPUE2KzBXUJeiuxAw/edit?pli=1 Gaming methods]</li>
<li>[https://docs.google.com/document/d/1UxEaH1GCN-N_N0i2kyQkHIX9EgoK8biVQZp8N4Q_SNM/edit?hl=en_US# Tips and Tricks]</li>
<li>[https://docs.google.com/document/d/18MmROVShMkrw8CCKPXvvq-Taip4Mrv4oASn462mpK_0/edit Teaching and tutorial puzzles]</li>
</ul>

Revision as of 12:03, 17 October 2013

Puzzles and lab differ considerably in EteRNA. Tactics and strategies that are effective in one aspect of the game are not guaranteed to help in others.

 

Puzzles 

Puzzles in EteRNA vary widely in difficulty. Many solutions can be found quickly, without using every tactic available. The hardest puzzles often employ creative uses of the "rules" that dictate how RNA folds in EteRNA.

 

Labs

  • Avoid submitting designs with excess AU, GU, or GC pairs!
  • Avoid long strings of any one base. Four identical bases in a row seems to be a good limit.
  • Leave all loops as adenine, unless you wish to boost your design. Boosting may or may not be helpful in lab.
  • Use of secondary structure prediction programs can identify very poor designs, but these programs are of uncertain value in determining which of two reasonable designs is superior.
  • Even Energy Distribution is a hypothesis that stabilizing or destabilizing features should not be concentrated in one area of a lab design.
  • Copying elements from previously successful designs has been moderately effective.

See also