Archive for 2012

Model-based Biomarkers for Alzheimer’s Disease

Recent results of model-based “functional biomarkers” were presented in the IEEE Conference on Engineering in Medicine & Biology (San Diego, August 2012) that demonstrate the potential for improved diagnosis of early-stage Alzheimer’s Disease (AD) using dynamic nonlinear models of cerebral hemodynamics obtained from clinical time-series data via our novel modeling methods employing Principal Dynamic Modes. The key finding is that AD patients exhibit impaired vasomotor reactivity as quantified by our model-based biomarkers. Model-based Quantification of Cerebral Vasomotor Reactivity and its Use for Improved Diagnosis of Alzheimer’s Disease and MCI V. Z. Marmarelis, Fellow IEEE, D. C. Shin, Member IEEE, M. E. Orme, R. Diaz-Arrastia & R. Zhang This presentation addresses the issue of clinical diagnosis of Alzheimer’s disease (AD) which represents a major threat to public health since it affects more than 5 million people and absorbs about $150 billion annually in the US alone. Currently, clinical diagnosis of AD… Read more

Modeling the Metabolic Syndrome

An extensive overview of the efforts that have been made to better understand the pathophysiology of metabolic syndrome using computational modeling will be published in the 2013 volume of IEEE Reviews in Biomedical Engineering. The review also introduces the notion that sleep-disordered breathing may play an important role in promoting the development of metabolic syndrome in obese individuals. Understanding the Metabolic Syndrome: A Modeling Perspective Khoo, M.C.K., Oliveira, F.M.G.S. & L. Cheng. IEEE Reviews in Biomedical Engineering 6, 2013. The prevalence of obesity is growing at an alarming rate, placing many at risk for developing diabetes, hypertension, sleep apnea, or a combination of disorders known as “metabolic syndrome”. The evidence to date suggests that metabolic syndrome results from an imbalance in the mechanisms that link diet, physical activity, glucose-insulin control, and autonomic cardiovascular control. There is also growing recognition that sleep-disordered breathing and other forms of sleep disruption can contribute… Read more

MIMO Nonlinear Dynamical Modeling for a Hippocampal

A recent publication in the IEEE Transactions on Neural Systems and Rehabilitation Engineering presents the application and hardware fabrication of the multi-input, multi-output (MIMO) nonlinear model for a hippocampal cognitive prosthesis. The modeling results show that the MIMO model can accurate predict the hippocampal CA1 (output) spiking activity based on the ongoing hippocampal CA3 (input) spiking activity and thus restore the lost memory function in rodents. A Hippocampal Cognitive Prosthesis: Multi-Input, Multi-Output Nonlinear Modeling and VLSI Implementation. Berger, T.W., Song, D., Chan, R.H.M., Marmarelis, V.Z., LaCoss, J., Wills, J., Hampson, R.E., Deadwyler, S.A. & Granacki, J.J. A Hippocampal Cognitive Prosthesis: Multi-Input, Multi-Output Nonlinear Modeling and VLSI Implementation. IEEE Transactions on Neural Systems and Rehabilitation Engineering. 20(2): 198-211, 2012. This paper describes the development of a cognitive prosthesis designed to restore the ability to form new long-term memories typically lost after damage to the hippocampus. The animal model used is delayed… Read more

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Release of TARGETgene

The vast array of in silico resources currently available in the life sciences research offers the possibility of aiding the drug discovery process. Core Project 1 of the BMSR has developed TARGETgene to exploit these resources and to allow the identification of potential therapeutic targets and drugs in cancer using genetic network-based approaches. TARGETgene is a MATLAB tool that can rapidly extract genetic interactions from a precompiled database, allowing millions of interactions involving thousands of candidate genes to be mapped within minutes to a gene network we developed for this purpose (Wu, Asgharzadeh, Triche, D’Argenio, Bioinformatics 26:807-813, 2010). An Overview, User’s Guide and Installation details for TARGETgene are provide on this web site.  See also the following publication: Wu, D’Argenio, Asgharzadeh, Triche. PLos ONE 7:e43305, 2012.

New Version of EONS v1.2

New Version of EONS v1.2. Significant speed improvements, batch simulations, etc… (see history for release notes) (Windows version only )

Core Research #4

Multi-Scale Modeling of Hippocampal Dynamics and Neural Prostheses Theodore W. Berger, Ph.D. Co-Investigator

Core Research #3

Models of Multi-Factor Disorders in Cardiorespiratory Control Michael C.K. Khoo, Ph.D. Co-Investigator

Core Research #2

Biomedical Systems Modeling for Improved Clinical Diagnosis & Treatment Vasilis Z. Marmarelis, Ph.D. Co-Director

Core Research #1

Pharmacokinetic / Pharmacodynamic Modeling & Systems Analysis David Z. D’Argenio, Ph.D. Co-Director