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Nanosphere Electrostatics Lab
22 May 2018 | | Contributor(s):: JCS Kadupitiya, Nicholas Brunk, Sohile Ali, Fox, Geoffrey C., Vikram Jadhao
The Nanosphere Electrostatics Lab empowers users to simulate the self-assembly of ions near a spherically shaped nanoparticle, and extract the effective electrostatic properties.
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CompuCell3D
16 May 2018 | | Contributor(s):: Anwar Shaikh
An open-source simulation environment for multi-cell, single-cell-based modeling of tissues, organs and organisms. Uses Cellular Potts Model to model cell behavior.
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pc4nanobio: cancer nanotherapy simulator
19 Apr 2018 | | Contributor(s):: Yafei Wang, Randy Heiland, Paul Macklin
Simulate cancer response to drug-loaded nanoparticles
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Ions in Nanoconfinement
22 Dec 2017 | | Contributor(s):: Kadupitige Kadupitiya, Nasim Anousheh, Suresh Marru, Fox, Geoffrey C., Vikram Jadhao
The Ions in Nanoconfinement app empowers users to simulate ions confined between material surfaces that are nanometers apart, and extract the associated ionic structure.
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[Illinois] Computational Structural Biology
24 Apr 2017 | | Contributor(s):: Emad Tajkhorshid
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[Illinois] Physics 598BP: Experimental Biophysics
11 Apr 2016 | | Contributor(s):: Paul R Selvin
This course provides training in advanced biophysical techniques through hands-on laboratory exercises and weekly lectures as background. Topics will cover general optical and fluorescence spectroscopy, introduction to various microscope techniques - wide field, bright field, DIC,...
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[Illinois] BioNanotechnology Summer Institute 2015
10 Nov 2015 | | Contributor(s):: Aleksei Aksimentiev, Rashid Bashir, Richard Chadwick, Brian Cunningham, Amy Herr, Joseph M K Irudayaraj, Hyun Joon Kong, Ting Lu, Marina Marjanovic, Cathy Murphy, Shuming Nie, Scott Siechen, Ivan Smalyukh
Twenty-six students, postdocs, and junior faculty from science and engineering disciplines from across the campus, the country, and overseas participated in the 2015 University of Illinois BioNanotechnology Summer Institute from July 27-August 7 at the Micro + Nanotechnology Lab, learning about...
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Molecular Dynamics Showcase Builder
09 Nov 2015 | | Contributor(s):: Michael McLennan, Nicholas K Kisseberth, George A. Howlett, Jim Slopsema, Aleksei Aksimentiev, Chen-Yu Li
Tool to create showcases for the Molecular Dynamics Showcase viewer.
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[Illinois] Biophysics 401: Introduction to Biophysics
17 Sep 2015 | | Contributor(s):: Paul R Selvin
Major concepts of physics inherent to biological systems. Basics of biology, including protein and DNA structure and their organization into cells with a focus on single molecule biophysics. Major experimental techniques including x-ray diffraction, optical and magnetic traps, and fluorescence...
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Cell Culture Basics Training
19 Aug 2015 | | Contributor(s):: Sophie A. Lelièvre, Shirisha Chittiboyina, Tim Kwok
This series of videos combined with accompanying PowerPoint file comprise introductory training for Cell Culture Basics. This learning unit is part of the training required for access to the Three Dimensional Cell Culture Core (3D3C) facility at Purdue University.
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Ionic Interactions in Biological and Physical Systems: a Variational Treatment
14 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
03 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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Functionalization Workbench
30 Aug 2013 | | Contributor(s):: AbderRahman N Sobh, Chen-Yu Li, Nahil Sobh, Aleksei Aksimentiev
Using molecular dynamic simulation - explore the interactions between a molecular structure and substrate when they are linked together.
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[Illinois] MCB 529 BRH Biological Rhythms in Health and Disease
24 Dec 2013 | | Contributor(s):: Martha U. Gillette
Our major research thrusts are to understand: 1) signals that engage the circadian clockwork in the brain, 2) sub-cellular micro-environments that shape neuronal dendrites in development and repair, and 3) emergent behaviors of integrated neuronal systems.
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[Illinois] Computational Microscopy for Health and Technology
27 Sep 2013 | | Contributor(s):: Klaus Schulten
It is today becoming possible to view and study biological systems on the cellular scale using computational methods, offering insights into new solutions to mankind's health and energy needs. Engineers and scientists at our NIH Center for Macromolecular Modeling and Bioinformatics have...
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[Illinois] Interdisciplinary Symposium on Advanced Nano/Biosystems (Design, Fabrication, and Characterization)
27 Sep 2013 |
Symposium Dates and LocationWednesday, September 25-Friday, September 27, 2013Frederick Seitz Materials Research Laboratory, University of Illinois at Urbana-ChampaignUrbana, Illinois, USA Program Symposium Focus:Nano/bio systems have...
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[Illinois] MCB 493 Neural Systems Modeling
03 Feb 2013 | | Contributor(s):: Thomas J. Anastasio
The purpose of this independent study is to give students hands-on experience in using computers to model neural systems. A neural system is a system of interconnected neural elements, or units. Students will use existing computer programs which will simulate real neural systems. They will...
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Molecular Dynamics Showcase
06 Jul 2013 | | Contributor(s):: Michael McLennan, Chen-Yu Li, john stone, Aleksei Aksimentiev, George A. Howlett
View interesting features of a molecular dynamics trajectory file
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[Illinois] Physics 550 Biomolecular Physics
03 Sep 2013 | | Contributor(s):: Klaus Schulten, Taekjip Ha
Physical concepts governing the structure and function of biological macromolecules; general properties, spatial structure, energy levels, dynamics and functions, and relation to other complex physical systems such as glasses; recent research in biomolecular physics;...
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[Illinois] GEM4 Cellular and Molecular Mechanics with a focus on Developmental Biology Summer School 2012
24 May 2013 |
Cellular and Molecular Mechanics with a focus on Developmental Biology The 2012 GEM4 Summer School program consists of lectures in the mornings by experts in cellular and molecular mechanics and developmental biology, and hands-on labs in the afternoons on various experimental techniques in...