Identifying accessible sites in RNA: The first step in designing antisense reagents

Wei Hua Pan, Gary A. Clawson

Research output: Contribution to journalReview articlepeer-review

11 Scopus citations


There is continued interest in development of antisense reagents (ASRs), including especially antisense oligonucleotides and small interfering RNAs, for experimental as well as therapeutic purposes. Optimization of ASRs begins with target site selection. Here we review protocols which have been developed to empirically determine effective target sites in RNAs. Such library selection technologies have demonstrated clear utility, and in vitro identification of sites has generally proven effective for cellular applications. A few groups are developing large combinatorial libraries and approaches to adapt use of such libraries to individual target RNAs, as well as learning algorithms to help with the optimization of target sites, particularly with respect to small interfering RNAs.

Original languageEnglish (US)
Pages (from-to)3083-3103
Number of pages21
JournalCurrent Medicinal Chemistry
Issue number25
StatePublished - Oct 2006

All Science Journal Classification (ASJC) codes

  • Biochemistry
  • Molecular Medicine
  • Pharmacology
  • Drug Discovery
  • Organic Chemistry


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