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Synthetic RNAs for Gene Regulation: Design Principles and Computational Tools

Abstract

The use of synthetic non-coding RNAs for post-transcriptional regulation of gene expression has not only become a standard laboratory tool for gene functional studies but it has also opened up new perspectives in the design of new and potentially promising therapeutic strategies. Bioinformatics has provided researchers with a variety of tools for the design, the analysis, and the evaluation of RNAi agents such as small-interfering RNA (siRNA), short-hairpin RNA (shRNA), artificial microRNA (a-miR), and microRNA sponges. More recently, a new system for genome engineering based on the bacterial CRISPR-Cas9 system (Clustered Regularly Interspaced Short Palindromic Repeats), was shown to have the potential to also regulate gene expression at both transcriptional and post-transcriptional level in a more specific way. In this mini review, we present RNAi and CRISPRi design principles and discuss the advantages and limitations of the current design approaches.
Authors:
Laganà, Alessandro; [1]  Shasha, Dennis; [2]  Croce, Carlo Maria [1] 
  1. Department of Molecular Virology, Immunology and Medical Genetics, Comprehensive Cancer Center, The Ohio State University, Columbus, OH (United States)
  2. Courant Institute of Mathematical Sciences, New York University, New York, NY (United States)
Publication Date:
Dec 11, 2014
Product Type:
Journal Article
Resource Relation:
Journal Name: Frontiers in Bioengineering and Biotechnology; Journal Volume: 2; Other Information: Copyright (c) 2014 Laganà, Shasha and Croce.; This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) or licensor are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.; Country of input: International Atomic Energy Agency (IAEA)
Subject:
60 APPLIED LIFE SCIENCES; BIOTECHNOLOGY; CALCULATION METHODS; DESIGN; GENE REGULATION; RNA
OSTI ID:
22688023
Country of Origin:
Switzerland
Language:
English
Other Identifying Numbers:
Journal ID: ISSN 2296-4185; TRN: US18$0067037032
Availability:
Available from http://dx.doi.org/10.3389/fbioe.2014.00065
Submitting Site:
USN
Size:
[7 page(s)]
Announcement Date:
May 18, 2018

Citation Formats

Laganà, Alessandro, Shasha, Dennis, and Croce, Carlo Maria. Synthetic RNAs for Gene Regulation: Design Principles and Computational Tools. Switzerland: N. p., 2014. Web. doi:10.3389/FBIOE.2014.00065.
Laganà, Alessandro, Shasha, Dennis, & Croce, Carlo Maria. Synthetic RNAs for Gene Regulation: Design Principles and Computational Tools. Switzerland. doi:10.3389/FBIOE.2014.00065.
Laganà, Alessandro, Shasha, Dennis, and Croce, Carlo Maria. 2014. "Synthetic RNAs for Gene Regulation: Design Principles and Computational Tools." Switzerland. doi:10.3389/FBIOE.2014.00065. https://www.osti.gov/servlets/purl/10.3389/FBIOE.2014.00065.
@misc{etde_22688023,
title = {Synthetic RNAs for Gene Regulation: Design Principles and Computational Tools}
author = {Laganà, Alessandro, Shasha, Dennis, and Croce, Carlo Maria}
abstractNote = {The use of synthetic non-coding RNAs for post-transcriptional regulation of gene expression has not only become a standard laboratory tool for gene functional studies but it has also opened up new perspectives in the design of new and potentially promising therapeutic strategies. Bioinformatics has provided researchers with a variety of tools for the design, the analysis, and the evaluation of RNAi agents such as small-interfering RNA (siRNA), short-hairpin RNA (shRNA), artificial microRNA (a-miR), and microRNA sponges. More recently, a new system for genome engineering based on the bacterial CRISPR-Cas9 system (Clustered Regularly Interspaced Short Palindromic Repeats), was shown to have the potential to also regulate gene expression at both transcriptional and post-transcriptional level in a more specific way. In this mini review, we present RNAi and CRISPRi design principles and discuss the advantages and limitations of the current design approaches.}
doi = {10.3389/FBIOE.2014.00065}
journal = {Frontiers in Bioengineering and Biotechnology}
volume = {2}
journal type = {AC}
place = {Switzerland}
year = {2014}
month = {Dec}
}