Cargando…

Whole-Genome Thermodynamic Analysis Reduces siRNA Off-Target Effects

Small interfering RNAs (siRNAs) are important tools for knocking down targeted genes, and have been widely applied to biological and biomedical research. To design siRNAs, two important aspects must be considered: the potency in knocking down target genes and the off-target effect on any nontarget g...

Descripción completa

Detalles Bibliográficos
Autores principales:	Chen, Xi, Liu, Peng, Chou, Hui-Hsien
Formato:	Online Artículo Texto
Lenguaje:	English
Publicado:	Public Library of Science 2013
Materias:	Research Article
Acceso en línea:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3590146/ https://www.ncbi.nlm.nih.gov/pubmed/23484018 http://dx.doi.org/10.1371/journal.pone.0058326

Ejemplares similares

siRNA Specificity: RNAi Mechanisms and Strategies to Reduce Off-Target Effects
por: Neumeier, Julia, et al.
Publicado: (2021)

Thermodynamic instability of siRNA duplex is a prerequisite for dependable prediction of siRNA activities
por: Ichihara, Masatoshi, et al.
Publicado: (2007)

Off-target effects of siRNA specific for GFP
por: Tschuch, Cordula, et al.
Publicado: (2008)

siRNA Off-Target Effects Can Be Reduced at Concentrations That Match Their Individual Potency
por: Caffrey, Daniel R., et al.
Publicado: (2011)

Efficient siRNA selection using hybridization thermodynamics
por: Lu, Zhi John, et al.
Publicado: (2008)

siRNA-Finder (si-Fi) Software for RNAi-Target Design and Off-Target Prediction
por: Lück, Stefanie, et al.
Publicado: (2019)

Thermodynamic stability and Watson–Crick base pairing in the seed duplex are major determinants of the efficiency of the siRNA-based off-target effect
por: Ui-Tei, Kumiko, et al.
Publicado: (2008)

siRNA off-target effects in genome-wide screens identify signaling pathway members
por: Buehler, Eugen, et al.
Publicado: (2012)

siDirect 2.0: updated software for designing functional siRNA with reduced seed-dependent off-target effect
por: Naito, Yuki, et al.
Publicado: (2009)

Computational models with thermodynamic and composition features improve siRNA design
por: Shabalina, Svetlana A, et al.
Publicado: (2006)

Minimizing off-target effects by using diced siRNAs for RNA interference
por: Myers, Jason W, et al.
Publicado: (2006)

Correction to ‘Thermodynamic stability and Watson–Crick base pairing in the seed duplex are major determinants of the efficiency of the siRNA-based off-target effect’
Publicado: (2023)

Targeted Delivery of siRNA
por: Oliveira, Sabrina, et al.
Publicado: (2006)

Optimal choice of functional and off-target effect-reduced siRNAs for RNAi therapeutics
por: Ui-Tei, Kumiko
Publicado: (2013)

Analysis by siRNA_profile program displays novel thermodynamic characteristics of highly functional siRNA molecules
por: Muhonen, Pirkko, et al.
Publicado: (2008)

siPools: highly complex but accurately defined siRNA pools eliminate off-target effects
por: Hannus, Michael, et al.
Publicado: (2014)

Thermodynamically optimal whole-genome tiling microarray design and validation
por: Cho, Hyejin, et al.
Publicado: (2016)

Detecting microRNA binding and siRNA off-target effects from expression data
por: van Dongen, Stijn, et al.
Publicado: (2008)

Off-Target Effect of Endogenous siRNA Derived from RMRP in Human Cells
por: Maida, Yoshiko, et al.
Publicado: (2013)

Rationally designed siRNAs without miRNA-like off-target repression
por: Seok, Heeyoung, et al.
Publicado: (2016)

OligoWalk: an online siRNA design tool utilizing hybridization thermodynamics
por: Lu, Zhi John, et al.
Publicado: (2008)

shRNA Off-Target Effects In Vivo: Impaired Endogenous siRNA Expression and Spermatogenic Defects
por: Song, Hye-Won, et al.
Publicado: (2015)

The siRNA Non-seed Region and Its Target Sequences Are Auxiliary Determinants of Off-Target Effects
por: Kamola, Piotr J., et al.
Publicado: (2015)

siRNA-mediated off-target gene silencing triggered by a 7 nt complementation
por: Lin, Xiaoyu, et al.
Publicado: (2005)

Learning signaling networks from combinatorial perturbations by exploiting siRNA off-target effects
por: Tiuryn, Jerzy, et al.
Publicado: (2019)

Functional dissection of siRNA sequence by systematic DNA substitution: modified siRNA with a DNA seed arm is a powerful tool for mammalian gene silencing with significantly reduced off-target effect
por: Ui-Tei, Kumiko, et al.
Publicado: (2008)

siRNA-mediated targeting of the RNA-dependent RNA polymerase in the Norovirus genome
por: Mac Cann, Rachel, et al.
Publicado: (2015)

siAbasic: a comprehensive database for potent siRNA-6Ø sequences without off-target effects
por: Park, Jongyeun, et al.
Publicado: (2018)

Genome-wide screens for effective siRNAs through assessing the size of siRNA effects
por: Zhang, Xiaohua Douglas
Publicado: (2008)

siRNA Targeting and Treatment of Gastrointestinal Diseases
por: Chevalier, Rachel
Publicado: (2019)

An Attempt to Detect siRNA-Mediated Genomic DNA Modification by Artificially Induced Mismatch siRNA in Arabidopsis
por: Miyagawa, Yosuke, et al.
Publicado: (2013)

RIsearch2: suffix array-based large-scale prediction of RNA–RNA interactions and siRNA off-targets
por: Alkan, Ferhat, et al.
Publicado: (2017)

Knockdown of TNFR1 by the sense strand of an ICAM-1 siRNA: dissection of an off-target effect
por: Clark, Paul R., et al.
Publicado: (2008)

C911: A Bench-Level Control for Sequence Specific siRNA Off-Target Effects
por: Buehler, Eugen, et al.
Publicado: (2012)

Enzyme-triggered PEGylated siRNA-nanoparticles for controlled release of siRNA
por: Yingyuad, Peerada, et al.
Publicado: (2014)

Thermal Stability of siRNA Modulates Aptamer- conjugated siRNA Inhibition
por: Berezhnoy, Alexey, et al.
Publicado: (2012)

Assembling structurally customizable synthetic carriers of siRNA through thermodynamically self-regulated process
por: Bai, Guang, et al.
Publicado: (2020)

A screen of chemical modifications identifies position-specific modification by UNA to most potently reduce siRNA off-target effects
por: Bramsen, Jesper B., et al.
Publicado: (2010)

Circular siRNAs for Reducing Off-Target Effects and Enhancing Long-Term Gene Silencing in Cells and Mice
por: Zhang, Liangliang, et al.
Publicado: (2017)

Chemical Modification of the siRNA Seed Region Suppresses Off-Target Effects by Steric Hindrance to Base-Pairing with Targets
por: Iribe, Hanna, et al.
Publicado: (2017)

Cannot write session to /tmp/vufind_sessions/sess_94t3vfef8cgilv74l27a5f4b1m