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PFRED: A computational platform for siRNA and antisense oligonucleotides design [preprint]

dc.contributor.authorSciabola, Simone
dc.contributor.authorXi, Hualin
dc.contributor.authorCruz, Dario
dc.contributor.authorCao, Qing
dc.contributor.authorLawrence, Christine
dc.contributor.authorZhang, Tianhong
dc.contributor.authorRotstein, Sergio
dc.contributor.authorHughes, Jason D.
dc.contributor.authorCaffrey, Daniel R.
dc.contributor.authorStanton, Robert
dc.date2022-08-11T08:08:25.000
dc.date.accessioned2022-08-23T15:54:24Z
dc.date.available2022-08-23T15:54:24Z
dc.date.issued2020-08-25
dc.date.submitted2020-09-03
dc.identifier.citation<p>bioRxiv 2020.08.25.265983; doi: https://doi.org/10.1101/2020.08.25.265983. <a href="https://doi.org/10.1101/2020.08.25.265983" target="_blank" title="View preprint in bioRxiv"> Link to preprint on bioRxiv service.</a></p>
dc.identifier.doi10.1101/2020.08.25.265983
dc.identifier.urihttp://hdl.handle.net/20.500.14038/29545
dc.description.abstractPFRED 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 as a java Jar file. The source code and the links for downloading the precompiled version can be found at https://github.com/pfred.
dc.language.isoen_US
dc.rightsThe copyright holder for this preprint (which was not peer-reviewed) is the author/funder. It is made available under a CC-BY 4.0 International license.
dc.rights.urihttp://creativecommons.org/licenses/by/4.0/
dc.subjectbioinformatics
dc.subjectsiRNA
dc.subjectantisense oligonucleotides
dc.subjectPFRED
dc.subjectopen source
dc.subjectsoftware platform
dc.subjectBioinformatics
dc.subjectComputational Biology
dc.subjectNucleic Acids, Nucleotides, and Nucleosides
dc.titlePFRED: A computational platform for siRNA and antisense oligonucleotides design [preprint]
dc.typePreprint
dc.source.journaltitlebioRxiv
dc.identifier.legacyfulltexthttps://escholarship.umassmed.edu/cgi/viewcontent.cgi?article=2792&amp;context=faculty_pubs&amp;unstamped=1
dc.identifier.legacycoverpagehttps://escholarship.umassmed.edu/faculty_pubs/1767
dc.identifier.contextkey19233091
refterms.dateFOA2022-08-23T15:54:24Z
html.description.abstract<p>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 <a href="https://github.com/pfred/pfred-gui/releases">https://github.com/pfred/pfred-gui/releases</a> as a java Jar file. The source code and the links for downloading the precompiled version can be found at <a href="https://github.com/pfred">https://github.com/pfred</a>.</p>
dc.identifier.submissionpathfaculty_pubs/1767
dc.contributor.departmentDepartment of Medicine, Division of Infectious Diseases and Immunology


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The copyright holder for this preprint (which was not peer-reviewed) is the author/funder. It is made available under a CC-BY 4.0 International license.
Except where otherwise noted, this item's license is described as The copyright holder for this preprint (which was not peer-reviewed) is the author/funder. It is made available under a CC-BY 4.0 International license.