Human Neocortical Neurosolver

What is being modeled?
Human electro- and magneto-encephalography (EEG/MEG)
Description & purpose of resource

Magneto- and electro-encephalography (MEG/EEG) non-invasively record human brain activity with millisecond resolution providing reliable markers of healthy and disease states. Relating these macroscopic signals to underlying cellular- and circuit-level generators is a limitation that constrains using MEG/EEG to reveal novel principles of information processing or to translate findings into new therapies for neuropathology. To address this problem, we built Human Neocortical Neurosolver (HNN, https://hnn.brown.edu) software. HNN has a graphical user interface designed to help researchers and clinicians interpret the neural origins of MEG/EEG. HNN's core is a neocortical circuit model that accounts for biophysical origins of electrical currents generating MEG/EEG. Data can be directly compared to simulated signals and parameters easily manipulated to develop/test hypotheses on a signal's origin. Tutorials teach users to simulate commonly measured signals, including event related potentials and brain rhythms. HNN's ability to associate signals across scales makes it a unique tool for translational neuroscience research.

Spatial scales
cellular
Temporal scales
10-3 - 1 s
This resource is currently
mature and useful in ongoing research
Has this resource been validated?
Yes
How has the resource been validated?
Key publications (e.g. describing or using resource)
Collaborators
Stephanie Jones
PI contact information
Stephanie_Jones@Brown.edu
Keywords
BRAIN TMM
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OpenSim: easy-to-use, extensible software for modeling, simulating, controlling, and analyzing the musculoskeletal system

What is being modeled?
The musculoskeletal system of humans and animals.
Description & purpose of resource

OpenSim is a software platform for modeling humans, animals, robots, and the environment, and simulating their interaction and movement. OpenSim has a graphical user interface (GUI) for visualizing models and generating and analyzing simulations. The open source and extensible software also includes an application programming interface (API) that developers can use to extend the software.

More information is available at opensim.stanford.edu

Spatial scales
organ
whole organism
Temporal scales
10-3 - 1 s
1 - 103 s
This resource is currently
mature and useful in ongoing research
Has this resource been validated?
Yes
How has the resource been validated?

To ensure our models and simulations are biologically accurate, we validate our simulation results by comparing with experimental measures and other independent models and simulations. We also use continuous integration to run a suite of verification tests for the software. For details see Seth et al., 2018.

Can this resource be associated with other resources? (e.g.: modular models, linked tools and platforms)
Yes
Which resources?

OpenSim has been linked to other modeling tools such as NMS Builder and finite element modeling software.

Key publications (e.g. describing or using resource)

Seth A, Hicks JL, Uchida TK, Habib A, Dembia CL, Dunne JJ, et al. (2018) OpenSim: Simulating musculoskeletal dynamics and neuromuscular control to study human and animal movement. PLoS Comput Biol 14(7): e1006223. (2018) https://doi.org/10.1371/journal.pcbi.1006223

Delp SL, Anderson FC, Arnold AS, Loan P, Habib A, John CT, Guendelman E, Thelen DG. OpenSim: Open-source Software to Create and Analyze Dynamic Simulations of Movement. IEEE Transactions on Biomedical Engineering. (2007) https://doi.org/10.1109/TBME.2007.901024

Collaborators
Scott Delp
PI contact information
delp@stanford.edu
Keywords
P2C, R24, U54
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