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 Concept Videos

Ligand-gated Ion Channels01:19

Ligand-gated Ion Channels

15.4K
Ligand-gated ion channels are transmembrane proteins with a channel for ions to pass through and a binding site for a ligand. The channel opens only when a ligand attaches to the binding site.
Three Subfamilies of Ligand-gated Ion Channels
Ligand-gated ion channels fall into three subfamilies. The 'Cys-loop' includes the nicotinic acetylcholine receptors, γ-aminobutyric acid (GABA), glycine, and 5-hydroxytryptamine receptors. The second one is the 'Pore-loop' channels that...
15.4K
Ligand-gated Ion Channels01:19

Ligand-gated Ion Channels

6.9K
6.9K
Ion Channels01:19

Ion Channels

92.6K
The movement of ions like sodium, potassium, and calcium into and out of the cell is essential to maintain the electrochemical gradient in living cells. The ion channels—a class of membrane transport proteins—help maintain this ionic gradient for the smooth functioning of physiological activities such as maintaining cell size and volume, conducting nerve impulses, and gas and nutrient exchange.
Ion channels are specialized integral membrane proteins on the plasma membrane that allow...
92.6K
Non-gated Ion Channels01:24

Non-gated Ion Channels

8.9K
Ion channels are specialized proteins on the plasma membrane that allow charged ions to pass down their electrochemical gradient. Their main function is to maintain the membrane potential which is critical for cell viability. These channels are either gated or non-gated and can transport more than a thousand ions within milliseconds for the cellular event to occur.
Compared to the gated ion channels, the non-gated channels, also known as leakage or passive channels, have no gating mechanism....
8.9K
Non-gated Ion Channels01:24

Non-gated Ion Channels

4.4K
4.4K
Voltage-gated Ion Channels01:26

Voltage-gated Ion Channels

6.1K
6.1K

You might also read

Related Articles

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

Sort by
Same author

Sparse transformer with local and seasonal adaptation for multivariate time series forecasting.

Scientific reports·2024
Same author

A novel extreme adaptive GRU for multivariate time series forecasting.

Scientific reports·2024
Same author

A robust and accurate single-cell data trajectory inference method using ensemble pseudotime.

BMC bioinformatics·2023
Same author

petal: Co-expression network modelling in R.

BMC systems biology·2016
Same author

A novel CPU/GPU simulation environment for large-scale biologically realistic neural modeling.

Frontiers in neuroinformatics·2013
Same author

Efficiently passing messages in distributed spiking neural network simulation.

Frontiers in computational neuroscience·2013
Same journal

CNV-ECOD: A copy number variation detection method based on ECOD algorithm using next-generation sequencing data.

Journal of bioinformatics and computational biology·2026
Same journal

ReinVar: A model-free paradigm-based reinforcement learning approach to detect copy number variation.

Journal of bioinformatics and computational biology·2026
Same journal

When pipelines run but coordinates fail: A simple spatial specificity check for false locality in post-GWAS analysis.

Journal of bioinformatics and computational biology·2026
Same journal

Comparative benchmarking of template-based, evolutionary-diffusion, and generative language models for IsPETase structure prediction.

Journal of bioinformatics and computational biology·2026
Same journal

Trap spaces as labelled ideals of SCC posets: A structural-functional theory of reachability in asynchronous boolean networks.

Journal of bioinformatics and computational biology·2026
Same journal

Designing of sorafenib analogs to target c-Raf for the management of hepatocellular carcinoma: Molecular dynamics and mmPBSA analysis.

Journal of bioinformatics and computational biology·2026
See all related articles

Related Experiment Video

Updated: Mar 24, 2026

Computational Modeling of Retinal Neurons for Visual Prosthesis Research - Fundamental Approaches
10:50

Computational Modeling of Retinal Neurons for Visual Prosthesis Research - Fundamental Approaches

Published on: June 21, 2022

2.2K

ModFossa: A library for modeling ion channels using Python.

Gareth B Ferneyhough1, Corey M Thibealut1, Sergiu M Dascalu1

  • 11 Department of Computer Science and Engineering, University of Nevada Reno, NV 89557, USA.

Journal of Bioinformatics and Computational Biology
|March 3, 2016
PubMed
Summary
This summary is machine-generated.

ModFossa is a new Python library for creating and simulating ion channel models using continuous-time Markov processes. It offers an accessible, powerful alternative to existing GUI-based software for electrophysiology research.

Keywords:
Ion channel modelingMarkov modelsPython

More Related Videos

Author Spotlight: Functional Site-Directed Fluorometry in Native Cells to Study Skeletal Muscle Excitability
12:26

Author Spotlight: Functional Site-Directed Fluorometry in Native Cells to Study Skeletal Muscle Excitability

Published on: June 2, 2023

1.6K
Recapitulation of an Ion Channel IV Curve Using Frequency Components
10:14

Recapitulation of an Ion Channel IV Curve Using Frequency Components

Published on: February 8, 2011

14.0K

Related Experiment Videos

Last Updated: Mar 24, 2026

Computational Modeling of Retinal Neurons for Visual Prosthesis Research - Fundamental Approaches
10:50

Computational Modeling of Retinal Neurons for Visual Prosthesis Research - Fundamental Approaches

Published on: June 21, 2022

2.2K
Author Spotlight: Functional Site-Directed Fluorometry in Native Cells to Study Skeletal Muscle Excitability
12:26

Author Spotlight: Functional Site-Directed Fluorometry in Native Cells to Study Skeletal Muscle Excitability

Published on: June 2, 2023

1.6K
Recapitulation of an Ion Channel IV Curve Using Frequency Components
10:14

Recapitulation of an Ion Channel IV Curve Using Frequency Components

Published on: February 8, 2011

14.0K

Area of Science:

  • Electrophysiology
  • Computational Biology
  • Ion Channel Research

Background:

  • Continuous-time Markov processes are widely used for ion channel modeling in electrophysiology.
  • Existing software solutions are primarily graphical user interface (GUI)-based.
  • There is a need for a flexible, Python-based tool for ion channel simulation.

Purpose of the Study:

  • To develop a user-friendly and powerful Python library for Markov model-based ion channel simulation.
  • To provide researchers with an accessible tool for creating and simulating ion channel models.
  • To address the lack of dedicated Python libraries in this field.

Main Methods:

  • Development of ModFossa, a novel Python library.
  • Implementation of continuous-time Markov process modeling.
  • Integration of a fast numerical solver and vector graphics plotting capabilities.

Main Results:

  • ModFossa enables easy creation and definition of ion channel models.
  • The library features a fast numerical solver for efficient simulations.
  • Attractive vector graphics plotting is included for data visualization.

Conclusions:

  • ModFossa provides a powerful and accessible Python library for ion channel modeling.
  • This tool simplifies the simulation of ion channel behavior using Markov processes.
  • It serves as a valuable resource for electrophysiology and computational biology research.