Positional effects of short interfering RNAs targeting the human coagulation trigger Tissue Factor.

By T. Holen, M. Amarzguioui, M. Wiiger, E. Babaie, H. Prydz. Nucleic Acids Research, 2002

763 citations recorded by the source corpus.

View Paper: https://www.semanticscholar.org/paper/8aca5e641be653e49cc0a2ddc268347cb640afdf

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In Molecular Biology

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Transcripts Targeted by the MicroRNA-16 Family Cooperatively Regulate Cell Cycle Progression (2007, background): “A potential limitation of this approach is that pooled siRNAs can compete for RNA-induced silencing complex binding, which may reduce silencing by the individual siRNAs (23).”
MicroRNA control of PHABULOSA in leaf development: importance of pairing to the microRNA 5′ region (2004, background): “However, there are cases where a single purine:purine (G:G) or pyrimidine:purine (C:A) mismatch within the central region of complementarity only mildly affects cleavage (Boutla et al, 2001; Holen et al, 2002).”
On the art of identifying effective and specific siRNAs (2006, background): “Small positional shifts along the target mRNA were sufficient to alter siRNA function in an apparently unpredictable manne”
Multi-task learning for cross-platform siRNA efficacy prediction: an in-silico study (2010, background): “1, [1,10] with interval 1 and [10,100] with interval 10.”
Rational siRNA design for RNA interference (2004, background): “Previous work had correlated low G/C content within target mRNA regions with efficient siRNA silencin”
Gene silencing in mammals by small interfering RNAs (2002, background): “To a certain degree, RNAi can tolerate siRNA:mRNA mismatches, with 1- and 2-bp mismatches only partially reducing the rate and extent of cleavag”
Killing the messenger: short RNAs that silence gene expression (2003, background): “Although the rules that govern efficient siRNA-directed gene silencing remain undefined ( Box 1 ), it is known that siRNAs that target different regions of the same gene vary markedly in their effectivenes”
RNA Interference: Biology, Mechanism, and Applications (2003, background): “Several siRNAs synthesized against different regions of the same target mRNA show different silencing efficiencies (101).”
Structural basis for overhang-specific small interfering RNA recognition by the PAZ domain (2004, result): “By contrast, many other studies have reported that 3′ modifications of siRN”
A biochemical framework for RNA silencing in plants. (2003, background): “…Sijen et al. 2001), Neurospora crassa (Cogoni and Macino 1999), and Dictyostelium discoideum (Martens et al. 2002), but likely not for RNAi inDrosophila or mammals (Celotto and Graveley 2002; Chiu and Rana 2002; Holen et al. 2002; Martinez et al. 2002b; Schwarz et al. 2002; Roignant et al. 2003).”
3′ UTR seed matches, but not overall identity, are associated with RNAi off-targets (2006, background): “Because early studies in RNAi established that single-base-pair mismatches could dramatically alter siRNA functionalit”
Generation of transgenic potato plants highly resistant to potato virus Y (PVY) through RNA silencing (2004, result): “This is unlike what has been observed in similar situations in mammalian tissue culture systems Holen et al. 2002 .”