FFTbor / FFTbor2D 2.0.2 – 2D Energy Landscape of / RNA Secondary Structures

FFTbor / FFTbor2D 2.0.2

:: DESCRIPTION

FFTbor computes Boltzmann probability for RNA structural neighbors using the fast Fourier transform.

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Given an RNA sequence having metastable secondary structures A,B, the program FFTbor2D computes the ensemble free energy E(x,y)=-RT log Z(x,y), taken over all secondary structures having base pair distance x from A,and base pair distance y from B.

::DEVELOPER

Clote Lab

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux

:: DOWNLOAD

FFTbor2D , FFTbor

:: MORE INFORMATION

Citation:

PLoS One. 2012;7(12):e50506. doi: 10.1371/journal.pone.0050506. Epub 2012 Dec 19.
Using the fast fourier transform to accelerate the computational search for RNA conformational switches.
Senter E1, Sheikh S, Dotu I, Ponty Y, Clote P.

J Math Biol. 2015 Jan;70(1-2):173-96. doi: 10.1007/s00285-014-0760-4. Epub 2014 Feb 12.
RNA folding pathways and kinetics using 2D energy landscapes.
Senter E1, Dotu I, Clote P.