Browse the toolkit beneath workflows. The mechanism branch runs mechanism -> architecture -> component, while the technique branch runs from high-level approaches down to concrete methods.
30 items matching 1 filter
Mechanism Branch
Layer 1
Mechanisms
Top-level concepts: biophysical action modes such as heterodimerization, photocleavage, or RNA binding.
Layer 2
Architectures
Arrangements that realize or deploy mechanisms, including switches, construct patterns, and delivery strategies.
Layer 3
Components
Low-level parts and sequence-defined elements used inside architectures, including protein domains and RNA elements.
Technique Branch
Layer 1
Approaches
High-level engineering practices such as computational design, directed evolution, sequence verification, and functional assay.
Layer 2
Methods
Concrete methods used to design, build, verify, or characterize engineered systems.
Showing 1-30 of 30
Recent technological innovations, including ... super-resolution and photoacoustic imaging ... have created new opportunities for investigating the cellular and molecular basis of VDs.
Opto-nanobodies (OptoNBs) are chimeric photoswitchable nanobody-based proteins whose binding to proteins of interest is enhanced or inhibited by blue light illumination. They function as a reversible, multi-component light-controlled binding switch for regulating protein interactions.
web_research_summary states the paper notably uses rsEGFP2-MAP2 in U2OS cells.
The system is based on the fluorescent protein DRONPA-s, which can be switched on and off repeatedly by illumination with different light qualities. Using transgenic 35S::DRONPA-s Arabidopsis thaliana and a confocal microscope it was possible to activate DRONPA-s fluorescence in selected cells of the root meristem.
G4switch is a cell-permeable small-molecule DNA G-quadruplex binder whose target engagement is reversibly controlled by visible light. In living cells, it enables light-dependent binding to chromatin G-quadruplex sites and optical control of expression of G4-containing genes.
The Nature Communications publisher page for the anchor paper states that the reported strategy is named Light-tunable tIme-gated readinG-out of pHotocycles for mulTiplexed fluorescence ImagiNG (LIGHTNING). The abstract describes the strategy as introducing extra kinetic dimensions through illuminations of reversibly photoswitchable fluorophores at different light intensities to recover kinetic fingerprints for label discrimination.
The supplied source summary states that the review explicitly covers STED/RESOLFT and references RESOLFT in relation to photoswitching-based resolution enhancement.
Web research summary lists rsEGFP as an RSFP used in superresolution workflows and explicitly discusses it in RESOLFT approaches.
web_research_summary states the paper describes super-resolution cryogenic correlative light and electron microscopy (SR-cryoCLEM) in mammalian cells using reversibly switchable fluorescent proteins.
reversibly switchable single-impulse panoramic photoacoustic computed tomography (RS-SIP-PACT)
The web research summary states that the paper describes a low-cost fluorescence macroscope that implements Speed OPIOM to suppress autofluorescence and ambient light during macroscale imaging.
This review describes polymers and surfaces that have been prepared recently that incorporate azobenzene groups, and some of the interesting physical and chemical properties that can be switched reversibly as a result.
The advantages and disadvantages of the three types of mPAHs, i.e. merocyanine, indazole, and TCF mPAHs, are compared with regard to photo-induced [H+], switching rate, and other properties.
The advantages and disadvantages of the three types of mPAHs, i.e. merocyanine, indazole, and TCF mPAHs, are compared with regard to photo-induced [H+], switching rate, and other properties.
Additionally the applications that have emerged in recent years are discussed, including gene regulation, drug delivery and materials design.
All localization precision and patterned illumination techniques-such as ... reversible saturable optically linear transitions ... take advantage of these inherent switching properties to achieve superior spatial resolution.
LINuS is a small genetically encoded protein domain for optogenetic control of subcellular localization. When fused to a protein of interest at either the N terminus or C terminus, it reversibly drives nuclear import in response to blue light.
Opto-T7RNAPs are engineered blue light-responsive T7 RNA polymerases that drive light-inducible transcription through an orthogonal RNA polymerase system. They were developed and tested in Escherichia coli to provide precise spatiotemporal control of gene expression.
Web research summary identifies Dreiklang as a mechanistically distinct RSFP; a high-signal source is described as "A reversibly photoswitchable GFP-like protein with fluorescence excitation decoupled from switching."
In the present article, we review the various systems that have been developed for controlling protein functions with light based on vertebrate rhodopsins, plant photoregulatory proteins and, most recently, the photoswitchable fluorescent protein Dronpa.
The web research summary states that the paper demonstrates use with reversibly photoswitchable fluorescent proteins including Dronpa-2.
We engineered opto-CD28-REACT, a recombinant protein comprising an anti-CD28 single-chain variable fragment, GFP, and phytochrome-interacting factor 6 (PIF6). This construct binds CD28 and thereby attaches PIF6 to CD28. Upon red light (630 nm) illumination, PIF6 binds to PhyB tetramer-coated beads, triggering CD28 signaling that can be attenuated by far-red light (780 nm) in 2 min.
The web research summary states that the paper demonstrates use with reversibly photoswitchable fluorescent proteins including Padron and that Padron is used together with Dronpa-2 for multiplexed macroscale fluorescence imaging.
Here we introduce a novel concept of photoswitchable hybrid probes consisting of thermochromic dye and absorbing nanoparticles... Our results suggest that these new photoswitchable multicolour probes can be used for multimodal cellular diagnostics and potentially for magnetic and photothermal therapy.
Molecular photoswitches have been incorporated in oligonucleotides for 20 years, and the field has currently grown beyond fundamental studies on photochemistry of the switches and DNA duplex stability, and is moving towards applications in chemical biology, nanotechnology and material science. In this comprehensive review, the key strategies for photoswitch inclusion in oligonucleotides are presented and illustrated with recent examples.
Here, we develop red/far-red light-regulated individually encapsulated (RL/FRL-EnE) cells, integrating optogenetics with biomaterial encapsulation for precise immunomodulation.
The web research summary states that the 2015 Scientific Reports article describes CRISPR/Cas9-mediated knock-in of fluorescent tags at endogenous loci in living human cells for RESOLFT imaging, using the reversibly switchable fluorescent protein rsEGFP2.
The paper introduces rsFolder and describes it as a hybrid of Superfolder-GFP and rsEGFP2.
The paper introduces rsFolder2 and reports that rsFolder2 is suitable for RESOLFT imaging in the E. coli periplasm.
The best-performing switch was incorporated into a FRET dyad with a rhodamine fluorophore, which exhibits robust, reversible switching between fluorescent and photoacoustic-dominant states with excellent contrast in vitro.