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Computational models with thermodynamic and composition features improve siRNA design.
Shabalina SA, Spiridonov AN, Ogurtsov AY
BMC Bioinformatics
2006,
7
:65
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PubMed Central articles that cite the above article:
1.
More complete gene silencing by fewer siRNAs: transparent optimized design and biophysical signature.
Ladunga I
Nucleic Acids Res
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Comparison of approaches for rational siRNA design leading to a new efficient and transparent method.
Matveeva O, Nechipurenko Y, Rossi L, Moore B, Saetrom P, Ogurtsov AY, Atkins JF, Shabalina SA
Nucleic Acids Res
2007,
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Thermodynamic instability of siRNA duplex is a prerequisite for dependable prediction of siRNA activities.
Ichihara M, Murakumo Y, Masuda A, Matsuura T, Asai N, Jijiwa M, Ishida M, Shinmi J, Yatsuya H, Qiao S, Takahashi M, Ohno K
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Efficient siRNA selection using hybridization thermodynamics.
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Fundamental differences in the equilibrium considerations for siRNA and antisense oligodeoxynucleotide design.
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OligoWalk: an online siRNA design tool utilizing hybridization thermodynamics.
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Impact of target mRNA structure on siRNA silencing efficiency: A large-scale study.
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Origins and evolution of eukaryotic RNA interference.
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