Title of Thesis: TIME SERIES TRANSCRIPTIONAL PROFILING ANALYSIS OF THE Arabidopsis thaliana USING FULL GENOME DNA MICROARRAY AND METABOLIC INFORMATION. Bhaskar Dutta, Master of Science, 2004 Thesis Directed By: Dr. Maria Klapa, Assistant Professor Department of Chemical Engineering Dr. John Quackenbush, Investigator The Institute for Genomic Research With the advent of the DNA microarray techno...

BACKGROUND Herba Cistanches (Roucongrong) is effective in treating Shenxu Zheng ('kidney-deficiency syndrome'). However, the mechanisms and systemic metabolic responses to the herbal intervention are unclear. METHODS Using GC-MS-based metabolic profiling, we investigated the metabolic responses to Herba Cistanches intervention in a rat model of the hydrocortisone-induced 'kidney-deficiency sy...

The transcriptional regulator CcpE is an important citrate-sensing regulator that modulates metabolic state, virulence factor expression, and bacterial virulence of Staphylococcus aureus (Ding et al., 2014 [1]). In this article, we report detailed methods for genome-wide transcriptional profiling of CcpE-regulated genes generated for the research article "Metabolic sensor governing bacterial vi...

Metabolic profiling, also known as metabonomics (Nicholson et al., 1999) or metabolomics (Raamsdonk et al., 2001), is a rapidly developing field in biomedical science that combines the application of spectroscopic techniques with multivariate statistical analysis in studies of the molecular composition of biofluids, cells and tissues. The experimental focus is on profiling metabolites the thous...

In the era of computational biology, new high throughput experimental systems are necessary in order to populate and refine models so that they can be validated for predictive purposes. Ideally such systems would be low volume, which precludes sampling and destructive analyses when time course data are to be obtained. What is needed is an in situ monitoring tool which can report the necessary i...

Identifying the individuals who will suffer a myocardial infarction as a result of coronary artery disease (CAD), in order to direct available therapeutic resources efficiently, remains an important limiting factor in the delivery of clinical care in the cardiovascular arena. Metabolite profiling is an example of a new type of diagnostic test that shows considerable promise. Nuclear magnetic re...

The low sensitivity and thus need for large sample volume is one of the major drawbacks of Nuclear Magnetic Resonance (NMR) spectroscopy. This is especially problematic for performing rich metabolic profiling of scarce samples such as whole cells or living organisms. This study evaluates a (1)H HR-MAS approach for metabolic profiling of small volumes (250 nl) of whole cells. We have applied an ...

INTRODUCTION Providing information on cancerous tissue samples during a surgical operation can help surgeons delineate the limits of a tumoral invasion more reliably. Here, we describe the use of metabolic profiling of a colon biopsy specimen by high resolution magic angle spinning nuclear magnetic resonance spectroscopy to evaluate tumoral invasion during a simulated surgical operation. CASE...