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The challenge of biomarker identification for bionanotechnology is that we need to find less than ten potential biomarkers from high throughput data so that quantum dot synthesis and imaging can be effective. Among all the extensive biomarker research, the novelty of our research is to reduce the number the biomarkers by studying the efficacy of several classifiers and error estimation methods. Specifically,...
Tissue engineered constructs have the potential to be used as replacements for current bone graft technologies. One component necessary for bone tissue engineering is a readily available, osteogenic cell source. Human dermal fibroblasts may have the potential to differentiate along an osteoblastic lineage, making them a candidate for use in bone tissue engineering applications. The objective of this...
The linear regression model has been widely used in the analysis of gene expression and microarray data to identify a subset of genes that are important to a given metabolic function. One of the key challenges in applying the linear regression model to gene expression data analysis arises from the sparse data problem, in which the number of genes is significantly larger than the number of conditions...
The complexity of full-cell metabolic and regulatory pathways currently hinders high accuracy biological simulations with traditional Ordinary Differential Equation (ODE) solver-based methodologies. In this paper event-driven simulators used to tackle problems of similar complexity in Very Large Scale Integration (VLSI) digital designs are employed to trade-off complexity for accuracy. An event-driven...
Numerous in vivo morphogenetic processes such as angiogenesis occur within a three-dimensional context, where both soluble growth factor-mediated and insoluble adhesive signals modulate cellular behaviors such as proliferation, differentiation, and apoptosis. Using microfabrication approaches to engineer the multidimensional cellular microenvironment, we are examining how these adhesive and growth...
An automated image analysis method for extracting the number of peroxisomes in yeast cells is presented. Two images of the cell population are required for the method: a bright field microscope image from which the yeast cells are detected and the respective fluorescent image from which the number of peroxisomes in each cell is found. The segmentation of the cells is based on clustering the local...
During cell progression from one state to another, such as transformation from benign to malignant conditions, cells undergo changes in gene regulation. To reveal state-dependent circuitries in human regulatory networks, we employed drafts of normal and malignant cell networks. Using these condition specific networks, gene profiles and annotated pathways we studied: a) the capacity to separate samples...
A Single Nucleotide Polymorphism (SNP) is a position in the genome at which two or more of the possible four nucleotides occur in a large percentage of the population. SNPs account for most of the genetic variability between individuals, and mapping SNPs in the human population has become the next high-priority in genomics after the completion of the Human Genome project. In diploid organisms such...
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