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.

17 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 delivery

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Light Plate Apparatus

Delivery Strategy

The Light Plate Apparatus (LPA) is an open-source light delivery device engineered for 24-well plates that provides two independent optical inputs to each well. It delivers wavelengths spanning 310 to 1550 nm with intensity control over three orders of magnitude and millisecond temporal resolution, and it has been used for spectral and dynamical calibration experiments in optogenetics and photobiology.

CFBacMamMusHumTxRep
Ev 37Rep 20Pr 71

LITOS is a LED Illumination Tool for Optogenetic Stimulation built from an assembled printed circuit board that controls a commercially available 32×64 LED matrix. It serves as a programmable light-delivery harness for optogenetic stimulation and is reported to support flexible temporal illumination schemes across multiple culture vessel formats.

CFBacMamMusHumTxRep
Ev 37Rep 20Pr 71

fiber optic technologies

Delivery Strategy

Fiber optic technologies are described as a delivery harness used to develop implantable devices for generating and recording signals in excitable tissues. In the cited optogenetics context, they support light-based monitoring of biochemical processes and control of cellular activity.

CFBacMamMusHumTxRep
Ev 28Rep 9Pr 71

Diya is a universal light illumination platform for multiwell plate cultures that is compatible with a wide range of cell culture plates and dishes. It provides programmable optical induction and has been used to drive light-controlled operation of an in vivo biomolecular feedback circuit.

CFBacMamMusHumTxRep
Ev 28Rep 9Pr 59

LED illumination system

Delivery Strategy

The LED illumination system is a low-cost, versatile, and customizable light-delivery harness for optogenetic experiments. It provides programmable illumination with automated precise timing and pulsing through an open-source user interface running on a personal computer or inexpensive tablet.

CFBacMamMusHumTxRep
Ev 28Rep 9Pr 59

bioreactor designs for optogenetic stimulation

Delivery Strategy

Bioreactor designs for optogenetic stimulation are light-delivery and culture-platform configurations used to stimulate optogenetic systems across experimental formats ranging from simple illumination set-ups to microscopy, microtiter plate, and bioreactor designs. These platforms support applications spanning single-cell stimulation to whole-culture illumination and can be integrated with automated measurement and stimulation for computer-controlled experiments.

CFBacMamMusHumTxRep
Ev 20Rep 9Pr 59

light emitting diodes

Delivery Strategy
Since 2022light delivery

Light emitting diodes (LEDs) are a light-delivery harness discussed in a 2022 review as part of light-engineering technology for modulating plant biology. In that context, LEDs are presented as a potential approach for fine-tuning crop defense and yield.

CFBacMamMusHumTxRep
Ev 20Rep 9Pr 59

light-induction hardware-software platforms

Delivery Strategy

Light-induction hardware-software platforms are optogenetic delivery systems that provide controlled illumination using formats ranging from simple illumination set-ups to microscopy, microtiter plate, and bioreactor designs. They are used to stimulate biological systems with light, and automated implementations can support computer-controlled experiments with in silico feedback control.

CFBacMamMusHumTxRep
Ev 20Rep 9Pr 59

microscopy designs for optogenetic stimulation

Delivery Strategy

Microscopy designs for optogenetic stimulation are light-delivery platform configurations that range from simple illumination set-ups to sophisticated microscopy, microtiter plate, and bioreactor designs. These platforms support optogenetic stimulation across experimental scales from single-cell stimulation to whole-culture illumination, and some incorporate automated measurement and stimulation for computer-controlled operation.

CFBacMamMusHumTxRep
Ev 20Rep 9Pr 59

optogenetic instruments and devices

Delivery Strategy

Optogenetic instruments and devices are light-delivery platforms used to test optogenetic strains across multiple culture scales in bioproduction settings. The cited literature frames these systems as evaluation and scale-up hardware relevant to adapting industrial bioprocesses for optogenetic control.

CFBacMamMusHumTxRep
Ev 20Rep 9Pr 59

photobioreactor designs

Delivery Strategy

Photobioreactor designs are light-delivery and cultivation hardware concepts used to test optogenetic strains for bioproduction at multiple culture scales. The cited literature indicates that existing photobioreactor designs and industrial-scale bioproduction processes could be adapted to support optogenetic control.

CFBacMamMusHumTxRep
Ev 20Rep 9Pr 59

pulse-controlled LED device

Delivery Strategy

The pulse-controlled LED device is a hardware light-delivery harness described as a constructible system for experiments requiring extended light treatments. The available evidence indicates that instructions and software were provided to support pulse-controlled illumination protocols.

CFBacMamMusHumTxRep
Ev 20Rep 9Pr 59

wireless implantable system

Delivery Strategy

A wireless implantable system is described as a configuration class within platforms for combined optogenetics and electrophysiology in live animals. In the supplied evidence, it functions as an implantable format for in vivo light delivery together with electrophysiological work, but no specific device architecture or operating characteristics are provided.

CFBacMamMusHumTxRep
Ev 20Rep 9Pr 59

stimulation goggles

Delivery Strategy
Since 2026light delivery

Stimulation goggles are a proposed light-delivery harness for the everyday application of optogenetic tools. The available evidence only indicates that this device concept may be improved by artificial intelligence-assisted image processing to increase resolution and adaptability.

CFBacMamMusHumTxRep
Ev 28Rep 0Pr 59

fiberoptic connector

Delivery Strategy

provide a detailed protocol for viral transduction of mouse cortical neurons and chronic implantation of a fiberoptic connector for light delivery in vivo

CFBacMamMusHumTxRep

optical arrays

Delivery Strategy

The future success of this approach will be governed by advances in the targeted delivery of opsins to auditory neurons, improvements in channel kinetics, development of optical arrays, and innovation of opsins that activate within the optimal near-infrared therapeutic window.

CFBacMamMusHumTxRep
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