9 Citations (Scopus)

Abstract

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
Volume13
Issue number25
DOIs
StatePublished - Oct 1 2006

Fingerprint

Small Interfering RNA
Libraries
RNA
Site selection
Antisense Oligonucleotides
Learning algorithms
Learning
Technology
Therapeutics
In Vitro Techniques

All Science Journal Classification (ASJC) codes

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

Cite this

@article{0e6d12aa8f4240448fc791688352af16,
title = "Identifying accessible sites in RNA: The first step in designing antisense reagents",
abstract = "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.",
author = "Pan, {Wei Hua} and Clawson, {Gary A.}",
year = "2006",
month = "10",
day = "1",
doi = "10.2174/092986706778521788",
language = "English (US)",
volume = "13",
pages = "3083--3103",
journal = "Current Medicinal Chemistry",
issn = "0929-8673",
publisher = "Bentham Science Publishers B.V.",
number = "25",

}

Identifying accessible sites in RNA : The first step in designing antisense reagents. / Pan, Wei Hua; Clawson, Gary A.

In: Current Medicinal Chemistry, Vol. 13, No. 25, 01.10.2006, p. 3083-3103.

Research output: Contribution to journalReview article

TY - JOUR

T1 - Identifying accessible sites in RNA

T2 - The first step in designing antisense reagents

AU - Pan, Wei Hua

AU - Clawson, Gary A.

PY - 2006/10/1

Y1 - 2006/10/1

N2 - 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.

AB - 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.

UR - http://www.scopus.com/inward/record.url?scp=33749430095&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=33749430095&partnerID=8YFLogxK

U2 - 10.2174/092986706778521788

DO - 10.2174/092986706778521788

M3 - Review article

C2 - 17073649

AN - SCOPUS:33749430095

VL - 13

SP - 3083

EP - 3103

JO - Current Medicinal Chemistry

JF - Current Medicinal Chemistry

SN - 0929-8673

IS - 25

ER -