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The identification of genes and pathways involved in biological processes is a central problem in systems biology. Recent microarray technologies and other high-throughput experiments provide information which sheds light on this problem. In this article, the authors propose a new computational method to detect active pathways, or identify differentially expressed pathways via integration of gene...
In mammals, the suprachiasmatic nucleus (SCN) of the hypothalamus is considered as the master circadian pacemaker. Each cell in the SCN contains an autonomous molecular clock, and the SCN is composed of multiple single-cell circadian oscillators. The fundamental question is how the individual cellular oscillators, expressing a wide range of periods, interact and assemble to create an integrated pacemaker...
Most cell processes involve dynamic interactions between the cells and their microenvironment and the ability to control the microenvironment is of crucial importance for studying these processes in-vitro. In this study, we describe a technology for creating multilayer and mechanically robust parylene-C stencils and demonstrate the ability to generate a series of at least 5 temporally controlled cell...
In this paper, we present a flexible parylene-C shadow mask technology for creating microscale patterns on flat and curved surfaces. The smallest feature size of 4 mum is demonstrated and the technology is scalable up to full wafer size. With the addition of SU-8 pillars, we also demonstrate multi mask processing with an alignment accuracy of about 5-6 mum. To achieve the smallest features, a low...
We aim at developing a new methodology to model and design periodic oscillators of gene regulatory networks with multiple genes, proteins and time delays, by using multiple time-scale networks (MTN). Multiple time scale properties are exploited to simplify the model according to singular perturbation theory. We show that a MTN has no stable equilibria but stable periodic orbits. Finally, we design...
Solid tumors and other pathologies can be treated using laser thermal ablation under interventional magnetic resonance imaging (iMRI) guidance. We developed a model to predict cell death from MR thermometry measurements and applied it to in vivo rabbit brain data. To align post-ablation T2-weighted spin-echo MR lesion images to gradient echo MR images, from which temperature is derived, we used a...
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