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vineetsk1 / Switch-Strategies

Implementations of the strategies for Eternabot switches.
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[Strategy Market] [Switch] How MicroRNA likes to bind: Turnoff labs #18

Open vineetsk1 opened 9 years ago

vineetsk1 commented 9 years ago

Original Author: Eli Fisker Original Link: https://getsatisfaction.com/eternagame/topics/-strategy-market-switch-how-microrna-likes-to-bind-turnoff-labs

Intro

It is not just switches that are different from static designs, also microRNA labs wants different things depending if they belong to the turn on or turnoff variant. :) Therefore a specific strategy for turnoff microRNA labs.

Strategy - Give + 3 if 18-19 of the microRNA bases are complementary bound to the RNA design. Subtract a point for each more or less base binding. - Give -1 for each of the base pairings that do not use the strongest possible match (eg a GU when a GC is possible or a GU when an AU is possible. Except at two first and two last of the basepairs from each end of the microRNA. The ends are allowed to pair weaker. So give only 1⁄2 penalty there. - Give -1 per each, if microRNA bases 12-14 is paired. MicroRNA bases that should preferably pair up with the design: 1-11 and 15-22 The winners seems to have microRNA base pair for around 18 base pairs.

Background articles https://getsatisfaction.com/eternagam... https://getsatisfaction.com/eternagam... https://getsatisfaction.com/eternagam... https://docs.google.com/document/d/1A...

vineetsk1 commented 9 years ago

Implemented with 53 lines of code.