PLoS ONE (Jan 2021)

PFRED: A computational platform for siRNA and antisense oligonucleotides design.

  • Simone Sciabola,
  • Hualin Xi,
  • Dario Cruz,
  • Qing Cao,
  • Christine Lawrence,
  • Tianhong Zhang,
  • Sergio Rotstein,
  • Jason D Hughes,
  • Daniel R Caffrey,
  • Robert V Stanton

DOI
https://doi.org/10.1371/journal.pone.0238753
Journal volume & issue
Vol. 16, no. 1
p. e0238753

Abstract

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PFRED a software application for the design, analysis, and visualization of antisense oligonucleotides and siRNA is described. The software provides an intuitive user-interface for scientists to design a library of siRNA or antisense oligonucleotides that target a specific gene of interest. Moreover, the tool facilitates the incorporation of various design criteria that have been shown to be important for stability and potency. PFRED has been made available as an open-source project so the code can be easily modified to address the future needs of the oligonucleotide research community. A compiled version is available for downloading at https://github.com/pfred/pfred-gui/releases/tag/v1.0 as a java Jar file. The source code and the links for downloading the precompiled version can be found at https://github.com/pfred.