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Biomedical Simulations Resource (BMSR)

David D'Argenio, Ph.D.
P41EB001978
Active

Center Overview

The Biomedical Simulations Resource (BMSR) in the Department of Biomedical Engineering at the University of Southern California is dedicated to the advancement of the state-of-the-art in biomedical modeling and simulation through Core and Collaborative Research projects, as well as the dissemination of this knowledge and related software through Service, Training and Dissemination activities aimed at the biomedical community at large. The BMSR includes four core research projects:

  • Pharmacokinetic/Pharmacodynamic Systems Analysis - David Z. D'Argenio, Ph.D., Co-Director
  • Nonlinear Modeling of Complex Biomedical Systems - Vasilis Z. Marmarelis, Ph.D., Co-Director
  • Modeling of Autonomic, Metabolic and Vascular Control Interactions - Michael C.K. Khoo, Ph.D., Co-Investigator
  • Nonlinear Modeling of the Hippocampus - Theodore W. Berger, Ph.D., Co-Investigator

Fifteen Collaborative Research Projects serve as challenging test grounds for the Resource's methodologies and expertise. The BMSR's service activities include the development and distribution of four software packages (ADAPT, LYSIS, PNEUMA & EONS).The Resource's Training and Dissemination activities include short courses, advanced workshops and the publication of associated research volumes.

Resources

ResourceDescriptionSupported PlatformsSupported FormatsData TypeData Size (compressed)
ADAPT
Biomedical Simulations Resource (BMSR)
NIBIB

A computational modeling platform for pharmacokinetic /pharmacodynamic analysis and systems pharmacology. Contains high-level software tools for early- through late-phase drug development, as well as clinical pharmacology applications.

Windows N/A N/A
EONS
Biomedical Simulations Resource (BMSR)
NIBIB

The EONS (Elementary Objects of the Nervous System) software allows in-depth study of a number of synaptic components (presynaptic terminal, postsynaptic spine and astrocytic ensheathment), as well as their complex spatial and temporal interactions.

Linux, Mac OSX, Windows N/A N/A
LYSIS
Biomedical Simulations Resource (BMSR)
NIBIB

LYSIS is an interactive set of modular programs that provide an integrated computing environment for data analysis and system modeling, emphasizing input-output nonlinear system modeling and the novel methodology of

Linux, Mac OSX, Windows Matlab N/A N/A
PNEUMA
Biomedical Simulations Resource (BMSR)
NIBIB

PNEUMA consists of a set of Simulink modules that are used to simulate the autoregulation of the cardiovascular and respiratory systems under conditions of changing sleep-wake state and a variety of physiological and pharmacological interventions.

Linux, Mac OSX, Windows Matlab N/A N/A
TARGETgene
Biomedical Simulations Resource (BMSR)
NIBIB

Identification of mutation drivers, possible therapeutic targets and drug candidates in cancer. The GUI allows users to find, select, and explore identified target genes and compounds. Predictions can be validated via user-defined benchmark or curated cancer genes.

Linux, Mac OSX, Windows Matlab N/A N/A