Source 1primary paper2007Oligonucleotides
Toolkit/small interfering RNA with randomly incorporated photolabile groups
small interfering RNA with randomly incorporated photolabile groups
Also known as: siRNA with randomly incorporated photolabile groups
Taxonomy: Mechanism Branch / Component. Workflows sit above the mechanism and technique branches rather than replacing them.
Summary
Small interfering RNA with randomly incorporated photolabile groups is a chemically modified RNAi reagent whose gene-silencing activity can be modulated by light. Available evidence indicates that siRNA can retain RNA interference activity despite certain chemical modifications, including modification at the 5′ antisense phosphate, although activity is reduced relative to native siRNA.
Usefulness & Problems
Why this is useful
This tool is useful for introducing optical control over siRNA-mediated gene silencing. The cited evidence supports light-dependent modulation of RNA interference and shows that some chemically modified siRNA species remain functionally competent, enabling conditional perturbation of gene expression.
Source:
present evidence that siRNA modified at the 5' antisense phosphate can still cause RNAi, although not at the level effected by fully native siRNA
Problem solved
It addresses the problem of controlling when siRNA-mediated RNA interference is active by coupling silencing to photolabile chemical groups. The evidence also speaks to a related design problem: whether siRNA can tolerate chemical modification at functionally important positions such as the 5′ antisense phosphate.
Problem links
Need precise spatiotemporal control with light input
DerivedSmall interfering RNA with randomly incorporated photolabile groups is a chemically modified RNAi reagent whose gene-silencing activity can be modulated by light. Available evidence indicates that siRNA can retain RNA interference activity despite certain chemical modifications, including modification at the 5′ antisense phosphate, although activity is reduced relative to native siRNA.
Taxonomy & Function
Primary hierarchy
Mechanism Branch
Component: A low-level RNA part used inside a larger architecture that realizes a mechanism.
Techniques
No technique tags yet.
Target processes
No target processes tagged yet.
Input: Light
Implementation Constraints
cofactor dependency: cofactor requirement unknownencoding mode: genetically encodedimplementation constraint: context specific validationimplementation constraint: spectral hardware requirementoperating role: sensorswitch architecture: cleavage
Implementation is based on chemical modification of siRNA with randomly incorporated photolabile groups. The supplied evidence also specifically references modification at the 5′ antisense phosphate and notes impurity analysis at the 1% level or below, but it does not provide construct design rules, delivery conditions, or illumination parameters.
The available evidence indicates reduced RNAi activity compared with fully native siRNA when the 5′ antisense phosphate is modified. Evidence breadth is limited to a small number of claims from a single source, and the provided material does not specify photolabile chemistry, illumination wavelength, target genes, cell types, or quantitative dynamic range of light control.
Validation
Cell-freeBacteriaMammalianMouseHumanTherapeuticIndep. Replication
Supporting Sources
Ranked Claims
siRNA modified at the 5' antisense phosphate can still cause RNA interference, but at a lower level than fully native siRNA.
present evidence that siRNA modified at the 5' antisense phosphate can still cause RNAi, although not at the level effected by fully native siRNA
siRNA modified at the 5' antisense phosphate can still cause RNA interference, but at a lower level than fully native siRNA.
present evidence that siRNA modified at the 5' antisense phosphate can still cause RNAi, although not at the level effected by fully native siRNA
siRNA modified at the 5' antisense phosphate can still cause RNA interference, but at a lower level than fully native siRNA.
present evidence that siRNA modified at the 5' antisense phosphate can still cause RNAi, although not at the level effected by fully native siRNA
siRNA modified at the 5' antisense phosphate can still cause RNA interference, but at a lower level than fully native siRNA.
present evidence that siRNA modified at the 5' antisense phosphate can still cause RNAi, although not at the level effected by fully native siRNA
siRNA modified at the 5' antisense phosphate can still cause RNA interference, but at a lower level than fully native siRNA.
present evidence that siRNA modified at the 5' antisense phosphate can still cause RNAi, although not at the level effected by fully native siRNA
siRNA modified at the 5' antisense phosphate can still cause RNA interference, but at a lower level than fully native siRNA.
present evidence that siRNA modified at the 5' antisense phosphate can still cause RNAi, although not at the level effected by fully native siRNA
siRNA modified at the 5' antisense phosphate can still cause RNA interference, but at a lower level than fully native siRNA.
present evidence that siRNA modified at the 5' antisense phosphate can still cause RNAi, although not at the level effected by fully native siRNA
Possible impurities that may account for residual RNAi were detected at 1% or less.
We have used mass spectrometry to identify and quantitate possible impurities that may be responsible for residual RNAi and show that they are present at 1% or less.
possible impurity abundance 1 %
Possible impurities that may account for residual RNAi were detected at 1% or less.
We have used mass spectrometry to identify and quantitate possible impurities that may be responsible for residual RNAi and show that they are present at 1% or less.
possible impurity abundance 1 %
Possible impurities that may account for residual RNAi were detected at 1% or less.
We have used mass spectrometry to identify and quantitate possible impurities that may be responsible for residual RNAi and show that they are present at 1% or less.
possible impurity abundance 1 %
Possible impurities that may account for residual RNAi were detected at 1% or less.
We have used mass spectrometry to identify and quantitate possible impurities that may be responsible for residual RNAi and show that they are present at 1% or less.
possible impurity abundance 1 %
Possible impurities that may account for residual RNAi were detected at 1% or less.
We have used mass spectrometry to identify and quantitate possible impurities that may be responsible for residual RNAi and show that they are present at 1% or less.
possible impurity abundance 1 %
Possible impurities that may account for residual RNAi were detected at 1% or less.
We have used mass spectrometry to identify and quantitate possible impurities that may be responsible for residual RNAi and show that they are present at 1% or less.
possible impurity abundance 1 %
Possible impurities that may account for residual RNAi were detected at 1% or less.
We have used mass spectrometry to identify and quantitate possible impurities that may be responsible for residual RNAi and show that they are present at 1% or less.
possible impurity abundance 1 %
RNA interference by siRNA can be modulated through randomly incorporated photolabile groups.
We have previously shown that RNAi by small interfering (si) RNA can be modulated through randomly incorporated photolabile groups.
RNA interference by siRNA can be modulated through randomly incorporated photolabile groups.
We have previously shown that RNAi by small interfering (si) RNA can be modulated through randomly incorporated photolabile groups.
RNA interference by siRNA can be modulated through randomly incorporated photolabile groups.
We have previously shown that RNAi by small interfering (si) RNA can be modulated through randomly incorporated photolabile groups.
RNA interference by siRNA can be modulated through randomly incorporated photolabile groups.
We have previously shown that RNAi by small interfering (si) RNA can be modulated through randomly incorporated photolabile groups.
RNA interference by siRNA can be modulated through randomly incorporated photolabile groups.
We have previously shown that RNAi by small interfering (si) RNA can be modulated through randomly incorporated photolabile groups.
RNA interference by siRNA can be modulated through randomly incorporated photolabile groups.
We have previously shown that RNAi by small interfering (si) RNA can be modulated through randomly incorporated photolabile groups.
RNA interference by siRNA can be modulated through randomly incorporated photolabile groups.
We have previously shown that RNAi by small interfering (si) RNA can be modulated through randomly incorporated photolabile groups.
The RNAi machinery has inherent tolerance toward modification of the 5' antisense phosphate.
Our results suggest that there is an inherent tolerance of the RNAi machinery toward modification of the 5' antisense phosphate.
The RNAi machinery has inherent tolerance toward modification of the 5' antisense phosphate.
Our results suggest that there is an inherent tolerance of the RNAi machinery toward modification of the 5' antisense phosphate.
The RNAi machinery has inherent tolerance toward modification of the 5' antisense phosphate.
Our results suggest that there is an inherent tolerance of the RNAi machinery toward modification of the 5' antisense phosphate.
The RNAi machinery has inherent tolerance toward modification of the 5' antisense phosphate.
Our results suggest that there is an inherent tolerance of the RNAi machinery toward modification of the 5' antisense phosphate.
The RNAi machinery has inherent tolerance toward modification of the 5' antisense phosphate.
Our results suggest that there is an inherent tolerance of the RNAi machinery toward modification of the 5' antisense phosphate.
The RNAi machinery has inherent tolerance toward modification of the 5' antisense phosphate.
Our results suggest that there is an inherent tolerance of the RNAi machinery toward modification of the 5' antisense phosphate.
The RNAi machinery has inherent tolerance toward modification of the 5' antisense phosphate.
Our results suggest that there is an inherent tolerance of the RNAi machinery toward modification of the 5' antisense phosphate.
Approval Evidence
1 source1 linked approval claimfirst-pass slug small-interfering-rna-with-randomly-incorporated-photolabile-groups
We have previously shown that RNAi by small interfering (si) RNA can be modulated through randomly incorporated photolabile groups.
Source:
light control modulationsupports
RNA interference by siRNA can be modulated through randomly incorporated photolabile groups.
We have previously shown that RNAi by small interfering (si) RNA can be modulated through randomly incorporated photolabile groups.
Source:
Comparisons
Source-backed strengths
The reported strength is that RNA interference by siRNA can be modulated through randomly incorporated photolabile groups. Additional evidence indicates that siRNA modified at the 5′ antisense phosphate still produces RNA interference, and possible impurities that might explain residual activity were detected at 1% or less.
Compared with phosphorothioate-caged antisense oligonucleotides
small interfering RNA with randomly incorporated photolabile groups and phosphorothioate-caged antisense oligonucleotides address a similar problem space.
Shared frame: same top-level item type; shared mechanisms: photocleavage; same primary input modality: light
Compared with photolabile-modified small interfering RNA
small interfering RNA with randomly incorporated photolabile groups and photolabile-modified small interfering RNA address a similar problem space.
Shared frame: same top-level item type; shared mechanisms: photocleavage; same primary input modality: light
Compared with photo-sensitive circular gRNAs
small interfering RNA with randomly incorporated photolabile groups and photo-sensitive circular gRNAs address a similar problem space.
Shared frame: same top-level item type; shared mechanisms: photocleavage; same primary input modality: light
Ranked Citations
- 1.