The present invention provides a miniaturized integrated nucleic acid diagnostic device and system. The device of the invention is generally capable of performing one or more sample acquisition and preparation operations, in combination with one or more sample analysis operations. For example, the device can integrate several or all of the operations involved in sample acquisition and storage, sample preparation and sample analysis, within a single integrated unit. The device is useful in a variety of applications, and most notably, nucleic acid based diagnostic applications and de novo sequencing applications.

Integrated nucleic acid diagnostic device

Most drugs have been discovered in random screens or by exploiting information about macromolecular receptors One source of this information is in the structures of critical proteins and nucleic acids The structure-based approach to design couples this information with specialized computer programs to propose novel enzyme inhibitors and other therapeutic agents Iterated design cycles have produced compounds now in clinical trials The combination of molecular structure determination and computation is emerging as an important tool for drug development These ideas will be applied to acquired immunodeficiency syndrome (AIDS) and bacterial drug resistance

https://science.sciencemag.org/content/sci/257/5073/1078.full.pdf

Structure-based strategies for drug design and discovery.

The present invention provides novel microfluidic devices and methods that are useful for performing high-throughput screening assays. In particular, the devices and methods of the invention are useful in screening large numbers of different compounds for their effects on a variety of chemical, and preferably, biochemical systems.

High throughput screening assay systems in microscale fluidic devices

Increased conversion of glucose to lactic acid associated with decreased mitochondrial respiration is a unique feature of tumors first described by Otto Warburg in the 1920s. Recent evidence suggests that the Warburg effect is caused by oncogenes and is an underlying mechanism of malignant transformation. Using a novel approach to measure cellular metabolic rates in vitro, the bioenergetic basis of this increased glycolysis and reduced mitochondrial respiration was investigated in two human cancer cell lines, H460 and A549. The bioenergetic phenotype was analyzed by measuring cellular respiration, glycolysis rate, and ATP turnover of the cells in response to various pharmacological modulators. H460 and A549 cells displayed a dependency on glycolysis and an ability to significantly upregulate this pathway when their respiration was inhibited. The converse, however, was not true. The cell lines were attenuated in oxidative phosphorylation (OXPHOS) capacity and were unable to sufficiently upregulate mitochondrial OXPHOS when glycolysis was disabled. This observed mitochondrial impairment was intimately linked to the increased dependency on glycolysis. Furthermore, it was demonstrated that H460 cells were more glycolytic, having a greater impairment of mitochondrial respiration, compared with A549 cells. Finally, the upregulation of glycolysis in response to mitochondrial ATP synthesis inhibition was dependent on AMP-activated protein kinase activity. In summary, our results demonstrate a bioenergetic phenotype of these two cancer cell lines characterized by increased rate of glycolysis and a linked attenuation in their OXPHOS capacity. These metabolic alterations provide a mechanistic explanation for the growth advantage and apoptotic resistance of tumor cells.

https://www.physiology.org/doi/pdf/10.1152/ajpcell.00247.2006

Multiparameter metabolic analysis reveals a close link between attenuated mitochondrial bioenergetic function and enhanced glycolysis dependency in human tumor cells.

The evolution of photoelectrochemical (PEC) bioanalysis has resulted in substantial progress in its analytical performance and biodetection applications. The aim of this review is to provide a panoramic snapshot of the state of the art in this dynamically developing field, with special emphasis on PEC DNA analysis, immunoassay, enzymatic biosensing and cell-related detection. The future prospects in this area are also evaluated and discussed. This work will serve as a useful source to inform the interested audience of the latest developments and applications in the field of PEC bioanalysis.

Photoelectrochemical bioanalysis: the state of the art

Cellular metabolism is affected by many factors in a cell's environment. Given a sufficiently sensitive method for measuring cellular metabolic rates, it should be possible to detect a wide variety of chemical and physical stimuli. A biosensor has been constructed in which living cells are confined to a flow chamber in which a potentiometric sensor continually measures the rate of production of acidic metabolites. Exploratory studies demonstrate several applications of the device in basic science and technology.

https://science.sciencemag.org/content/sci/246/4927/243.full.pdf

Detection of cell-affecting agents with a silicon biosensor

Activation of beta-adrenergic or muscarinic acetylcholine receptors expressed in transfected cells or epidermal growth factor receptors in human keratinocytes produces 15% to 200% changes in cellular metabolic rates. Changes in cell metabolism were monitored continuously with a previously described silicon-based microphysiometer that detects small changes in extracellular pH. The amplitude and kinetics of the metabolic changes depend upon several factors including pretreatment of the cells prior to receptor stimulation, the dose of hormone/neurotransmitter used, and the receptor complement of the cells. Responses are receptor specific; cells transfected with receptor genes respond only to the appropriate hormone/transmitter, whereas control (nontransfected) cells or cells transfected with different receptors exhibit no response. The specificity of the responses was further documented by using pharmacological antagonists. In Chinese hamster ovary (CHO) cells transfected with human beta 2-adrenergic receptors, isoproterenol produces a 20-60% increase in the rate of extracellular acidification with an EC50 of 4 nM, a response that is competitively antagonized by (-)-propranolol. The EC50 for the isoproterenol response is shifted from 4 nM to 100 nM in the presence of 3 nM (-)-propranolol. The kinetics of the metabolic response induced by beta-adrenergic receptor stimulation are markedly slower than those elicited by muscarinic receptor agonists. The maximal metabolic response in cells transfected with beta-adrenergic receptors peaks at approximately 12 min as compared with less than 30 sec in cells transfected with muscarinic receptors, perhaps reflecting activation of different second-messenger pathways. These findings illustrate an alternative means of studying cellular responses to hormones and neurotransmitters and suggest that metabolic changes will be generally useful for detecting the consequences of receptor-ligand interactions.

Continuous monitoring of receptor-mediated changes in the metabolic rates of living cells.

Methods are disclosed for detecting the effects of cell affecting agents on living cells The method steps include providing living cells that are retained in a micro flow chamber The micro flow chamber is adapted for either continuous or intermittent flow of solutions or suspensions in intimate contact with the cells The solutions or suspensions, which contain a cell affecting agent, are then flowed in intimate contact with the cells and at least one effect of the cell affecting agent on the cells is measured by an appropriate detecting means, which is operatively associated with the micro flow chamber

Methods for detecting the effect of cell affecting agents on living cells

Methods and apparatus are disclosed for detecting the effects of cell affecting agents on living cells. The method steps include providing living cells that are retained in a micro flow chamber. The micro flow chamber is adapted for either continuous or intermittent flow of solutions or suspensions in intimate contact with the cells. The solutions or suspensions, which contain a cell affecting agent, are then flowed in intimate contact with the cells and at least one effect of the cell affecting agent on the cells is measured by an appropriate detecting means, which is operatively associated with the micro flow chamber.

Methods and apparatus for detecting the effect of cell affecting agents on living cells.

Cellular perfusion chambers have been constructed from the Light Addressable Potentiometric Sensor (LAPS) previously described. The authors have used these chambers to measure the effects of a variety of agents on the metabolic rates of cells. The chambers are used in a stopped flow mode. When flow is on, samples may be introduced to the chamber. When flow is stopped, acidification of the very small volume of medium in the chamber is used to determined the metabolic rate of the cells. Using a variety of types of mammalian cells the authors have demonstrated the following. The triggering of cellular receptors can be determined in minutes. Metabolic inhibition of normal human cells by a test compound can be correlated with the compounds in vivo ocular irritancy. And the efficacy of chemotherapeutic agents on tumor cells exhibiting multidrug resistance can be determined in a few hours.

Biosensors for directly measuring cell affecting agents.

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