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Analyzing Correlation Structure in a Model of Neural Activity-Dependent Homeostatic Plasticity (ADHP)
13 Dec 2022 | Contributor(s):: Stolting, Lindsay, Waldow, Grant Christian
Users can manipulate the parameters of an abstract model of ADHP and analyze the correlation structures that arise (or don't arise) as a result.
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[Illinois] Biophysics 401 Lecture 24: Ion Channels III
10 Dec 2015 | | Contributor(s):: Paul R Selvin
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[Illinois] Biophysics 401 Lecture 23: Ion Channels II
07 Dec 2015 | | Contributor(s):: Paul R Selvin
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[Illinois] Biophysics 401 Lecture 22: Ion Channels I
03 Dec 2015 | | Contributor(s):: Paul R Selvin
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Ionic Interactions in Biological and Physical Systems: a Variational Treatment
15 Feb 2014 | | Contributor(s):: Bob Eisenberg
All biology occurs in ionic mixtures loosely called Ringer solutions. Biology depends on interactions of ions. Interactions of Na+, K+, and Ca2+ with channel proteins produce electrical signals of nerves and coordinate muscle contraction including the heart. Proteins, channels, and nucleic acids...
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Mathematics of Ions in Channels and Solutions: Stochastic Derivations, Direct, Variational and Inverse Solutions that fit Data
05 Feb 2014 | | Contributor(s):: Bob Eisenberg
Literally thousands of biologists study the properties of channels in experiments every day. My collaborators and I have shown how the relevant equations can be derived (almost) from stochastic differential equations, and how they can be solved in inverse, variational, and direct problems using...
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[Illinois] Coarse-grained Simulation of Ion Channels
29 Dec 2012 | | Contributor(s):: Umberto Ravaioli
This Summer School will train students in molecular simulation and simulation at multiple time and length scales. Instruction will be provided on quantum Monte Carlo simulation, molecular dynamics, coarse-grained simulations, and multiscale simulations with opportunities for hands-on experience...
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[Illinois] Coarse-grained Simulation of Ion Channels
19 Jun 2012 | | Contributor(s):: Umberto Ravaioli
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Discussion about Ion Channels Using Reduced Model Approaches
21 Sep 2011 | | Contributor(s):: James Fonseca
The seminar will cover the reasons how the channels are able to selectively permit the flow of certain species of ions while blocking other physiological cations.
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Illinois iOptics Lecture 1: Super Accuracy and Super-Resolution of Molecular Motors and Ion Channels
16 Apr 2010 | | Contributor(s):: Paul R Selvin
The standard diffraction limit of light is about 250 nm, meaning that you cannot "resolve" objects closer than this distance. Despite this, we have come up with a method to measure individual biomolecules with 1.5 nm spatial localization in x-y plane and 1-500 msec temporal resolution,...
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Hierarchy of Simulation Approaches for Charge Transport Simulation
01 Aug 2008 | | Contributor(s):: Omar N Sobh, Umberto Ravaioli
General considerations Model simulation hierarchy Continuum model Particle Transport Monte Carlo model Examples of simulations Umberto Ravaioli - University of Illinois, Urbana-ChampaignNCN@Purdue Student Leadership Team Network for Computational Nanotechnology The Institute for Nanoelectronics...
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Ionic Selectivity in Channels: complex biology created by the balance of simple physics
05 Jun 2008 | | Contributor(s):: Bob Eisenberg
An important class of biological molecules—proteins called ionic channels—conduct ions (like Na+ , K+ , Ca2+ , and Cl− ) through a narrow tunnel of fixed charge (‘doping’). Ionic channels control the movement of electric charge and current across biological membranes...
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Lecture 23: Vision
26 Apr 2008 | | Contributor(s):: Paul R Selvin
Summary of Ion Channels, Vision , Visual System, The Eye, Structure of the Eye, Signal Processing, Diffraction and Pupil
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Lecture 21: Nerves
24 Apr 2008 | | Contributor(s):: Paul R Selvin
Ion Channels,Ionic current, Gating current, Digital Ion Channels, Structural studies, X-ray Crystallography
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Lecture 22: Conformational Changes in Ion Channels
24 Apr 2008 | | Contributor(s):: Paul R Selvin
Voltage dependence, Spontaneous shut-off, Nerve Impulse propagation, Structure Pore Domain, Voltage Sensor
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P-N Semiconductor Membranes for Ion Filtering and Rectification
06 Apr 2008 | | Contributor(s):: J. P. Leburton
Jean-Pierre Leburton's research at the Beckman Institute deals with transport and optical processes in semiconductor nanostructures such as quantum wires and quantum dots that exhibit a high degree of quantization dependent on the semiconductor materials and geometrical confinement. This...
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Ion Selectivity in Synthetic and Natural Channels
31 Mar 2008 | | Contributor(s):: Susan Rempe
Transport across membranes and nanopores can be characterized by static equilibrium properties as well as by nonequilibrium dynamic properties. For example, equilibrium selectivity properties of a nanopore can be characterized by the difference in interaction free energy for transferring one ion...
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Spectroscopy and Modeling to Infer Channel Structure and Function
23 Mar 2008 | | Contributor(s):: Vishwanath Jogini
We are particularly interested in issues about ion permeation, ion selectivity, gating, and channel inhibitors. We are currently working on the KcsA channel, the OmpF porin, and the gramicidin A> channel. We are also spending our efforts in the development of new computational approaches for...
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biomoca
30 May 2006 | | Contributor(s):: Reza Toghraee, Umberto Ravaioli
Ion channel simulator
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BioMOCA Suite
04 Feb 2008 | | Contributor(s):: David Papke, Reza Toghraee, Umberto Ravaioli, Ankit Raj
Simulates ion flow through a channel.