Toolkit Items

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.

16 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.

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light-gated ion channel activation

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ChR2(C128A)

Protein Domain

ChR2(C128A) is a C128A step-function mutant of channelrhodopsin-2 used as a light-responsive protein domain for prolonged optogenetic activation. The supplied evidence indicates that it is unsuitable for chronic neuronal stimulation but is useful for light-controlled induction of immediate early genes, including c-fos promoter-driven protein expression with precise timing and single-cell specificity.

CFBacMamMusHumTxRep
Ev 37Rep 20Pr 71

ChAT-ChR2-EYFP mice

Construct Pattern

Recent studies have used bacterial artificial chromosome (BAC) transgenic mice expressing channelrhodopsin-2 (ChR2) protein under the control of the choline acetyltransferase (ChAT) promoter (ChAT-ChR2-EYFP) to dissect cholinergic circuit connectivity and function using optogenetic approaches.

CFBacMamMusHumTxRep
Ev 28Rep 9Pr 59

Chronos is a channelrhodopsin construct used for optical excitation of neurons. In the cited 2014 Nature Methods work, it is presented with Chrimson as a complementary optogenetic pair for two-color activation of distinct neural populations, enabling independent spiking and downstream synaptic transmission in mouse brain slice without detectable cross-talk.

CFBacMamMusHumTxRep
Ev 28Rep 9Pr 59

In this study, we used channelrhodopsin (ChR2), an optogenetic actuator, to control AgRP neuronal activity. We created a transgenic line, Tg(AgRP1:ChR2-Kaede), where ChR2-Kaede is expressed in AgRP1 neurons.

CFBacMamMusHumTxRep
Ev 22Rep 9Pr 59

ChETA-SFO co-expression strategy

Multi-Component Switch

ChETA-SFO co-expression strategy is a multi-component optogenetic design that co-expresses a fast channelrhodopsin with a step-function opsin to improve neuronal optical switching. In a 2022 theoretical study, this approach was proposed to support sustained low-power, high-frequency, high-fidelity spiking by combining fast channelrhodopsin-driven excitation with sustained step-function opsin photocurrent.

CFBacMamMusHumTxRep
Ev 28Rep 9Pr 37

Thy-1.2 promoter-regulated ChR2 transgenic rat construct pattern

Protein Domain

The Thy-1.2 promoter-regulated ChR2 transgenic rat construct pattern is a transgenic rat system in which channelrhodopsin-2 is expressed specifically in retinal ganglion cells under control of the Thy-1.2 promoter. It enables light-driven activation of these cells and was associated with behavior-related visual responses after native photoreceptor degeneration.

CFBacMamMusHumTxRep
Ev 14Rep 9Pr 47
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