Jove
Visualize
Contact Us
JoVE
x logofacebook logolinkedin logoyoutube logo
ABOUT JoVE
OverviewLeadershipBlogJoVE Help Center
AUTHORS
Publishing ProcessEditorial BoardScope & PoliciesPeer ReviewFAQSubmit
LIBRARIANS
TestimonialsSubscriptionsAccessResourcesLibrary Advisory BoardFAQ
RESEARCH
JoVE JournalMethods CollectionsJoVE Encyclopedia of ExperimentsArchive
EDUCATION
JoVE CoreJoVE BusinessJoVE Science EducationJoVE Lab ManualFaculty Resource CenterFaculty Site
Terms & Conditions of Use
Privacy Policy
Policies

Related Experiment Video

Updated: Mar 21, 2026

Author Spotlight: Advancing Optogenetics Research Using Lustro
03:26

Author Spotlight: Advancing Optogenetics Research Using Lustro

Published on: August 4, 2023

1.1K

PyRhO: A Multiscale Optogenetics Simulation Platform.

Benjamin D Evans1, Sarah Jarvis2, Simon R Schultz2

  • 1Centre for Bio-Inspired Technology, Institute of Biomedical Engineering, Department of Electrical and Electronic Engineering, Imperial College London London, UK.

Frontiers in Neuroinformatics
|May 6, 2016
PubMed
Summary
This summary is machine-generated.

Related Concept Videos

You might also read

Related Articles

Articles linked to this work by shared authors, journal, and citation graph.

Sort by
Same author

Ultra-wide-field, deep, adaptive two-photon microscopy for multi-scale neuronal imaging.

Light, science & applications·2026
Same author

Synergy mediates long-range correlations in the visual cortex near criticality.

Frontiers in computational neuroscience·2026
Same author

IUPAC-induced computational approaches for identifying boosters of small biomolecule functionality: A case study of human tyrosyl-DNA phosphodiesterase 1 (TDP1) inhibitors.

Computers in biology and medicine·2026
Same author

Astrocytes and neurons exhibit partially shared but distinct composite receptive fields for natural stimuli.

Journal of neurophysiology·2026
Same author

Diagnostic utility of IBEX Bone Health for assessment of osteoporosis from knee radiographs.

Frontiers in molecular biosciences·2025
Same author

Synergy mediates Long-Range Correlations in the Visual Cortex Near Criticality.

bioRxiv : the preprint server for biology·2025
Same journal

Predicting vasovagal syncope during head-up tilt test: three machine learning approaches.

Frontiers in neuroinformatics·2026
Same journal

Decoding basal ganglia motor circuit dysfunction from handwriting: a physics-informed neural signal interpretation framework for Parkinson's disease screening.

Frontiers in neuroinformatics·2026
Same journal

FUSION-AD: interpretable AI framework for risk assessment and subgroup discovery in Alzheimer's disease.

Frontiers in neuroinformatics·2026
Same journal

A 3D-printed phantom to validate subject orientation in 3D imaging and recordings.

Frontiers in neuroinformatics·2026
Same journal

IntegriLAB: a blockchain-enabled electronic lab notebook for reproducible neuroimaging research.

Frontiers in neuroinformatics·2026
Same journal

Long-range correlations in alpha-band of electroencephalogram: a nonlinear embedding and detrended fluctuation analysis.

Frontiers in neuroinformatics·2026
See all related articles

PyRhO is an open-source computational tool suite for optogenetics. It aids in characterizing opsins, simulating their behavior at multiple scales, and guiding experimental design for neural circuit research.

Area of Science:

  • Neuroscience
  • Computational Biology
  • Biophysics

Background:

  • Optogenetics is crucial for studying neural circuits and behavior.
  • Various opsins with diverse properties are available for optogenetic applications.
  • Characterizing and applying opsins requires robust computational tools.

Purpose of the Study:

  • Introduce PyRhO, an integrated suite of open-source computational tools for optogenetics.
  • Enable characterization, multi-scale simulation, and in silico functional analysis of opsins.
  • Facilitate understanding and application of opsins in neuroscience research.

Main Methods:

  • Developed PyRhO, a Python-based suite with a Jupyter notebook GUI.
  • Integrated automated kinetic model fitting for opsin characterization.
Keywords:
Brian simulatorJupyterNEURON simulatorPyRhOPythonopsinoptogeneticsspiking neurons

More Related Videos

Mapping the Cellular Distribution of an Optogenetic Protein Using a Light-Stimulation Grid
08:49

Mapping the Cellular Distribution of an Optogenetic Protein Using a Light-Stimulation Grid

Published on: January 26, 2024

647
Laser-scanning Photostimulation of Optogenetically Targeted Forebrain Circuits
07:43

Laser-scanning Photostimulation of Optogenetically Targeted Forebrain Circuits

Published on: December 27, 2013

9.8K

Related Experiment Videos

Last Updated: Mar 21, 2026

Author Spotlight: Advancing Optogenetics Research Using Lustro
03:26

Author Spotlight: Advancing Optogenetics Research Using Lustro

Published on: August 4, 2023

1.1K
Mapping the Cellular Distribution of an Optogenetic Protein Using a Light-Stimulation Grid
08:49

Mapping the Cellular Distribution of an Optogenetic Protein Using a Light-Stimulation Grid

Published on: January 26, 2024

647
Laser-scanning Photostimulation of Optogenetically Targeted Forebrain Circuits
07:43

Laser-scanning Photostimulation of Optogenetically Targeted Forebrain Circuits

Published on: December 27, 2013

9.8K
  • Incorporated multi-scale simulation capabilities (channel, neuron, network levels) using NEURON and Brian2.

    • Main Results:

    • PyRhO allows automatic fitting of experimental data to kinetic models.
    • Simulations can be performed at channel, neuron, and network levels.
    • Provides functional insights through model selection and virtual experiments.

    Conclusions:

    • PyRhO offers a comprehensive platform for understanding opsin behavior.
    • The tool guides experimental design, opsin selection, and neuro-engineering feedback.
    • PyRhO is expected to significantly advance optogenetics in biological sciences.