Protein arrays in functional genome research.
(25/1368)
Whole-genome analyses become more and more necessary for pharmaceutical research. DNA chip hybridizations are an important tool for monitoring gene expression profiles during diseases or medical treatment. However, drug target identification and validation as well as an increasing number of antibodies and other polypeptides tested as potential drugs produce an increasing demand for genome-wide functional assays. Protein arrays are an important step into this direction. Peptide arrays and protein expression libraries are useful for the identification of antibodies and for epitope mapping. Antibody arrays allow protein quantification, protein binding studies, and protein phosphorylation assays. Tissue micro-arrays give a detailed information about the localization of macromolecules. More complex interactions can be addressed in cells spotted in array format. Finally, microfluidics chips enable us to describe the communication between cells in a tissue. In this review, possibilities, limitations and chances of different protein array techniques are discussed. (+info)
Application of single molecule technology to rapidly map long DNA and study the conformation of stretched DNA.
(26/1368)
Herein we describe the first application of direct linear analysis (DLA) to the mapping of a bacterial artificial chromosome (BAC), specifically the 185.1 kb-long BAC 12M9. DLA is a single molecule mapping technology, based on microfluidic elongation and interrogation of individual DNA molecules, sequence-specifically tagged with bisPNAs. A DNA map with S/N ratio sufficiently high to detect all major binding sites was obtained using only 200 molecule traces. A new method was developed to extract an oriented map from an averaged map that included a mixture of head-first and tail-first DNA traces. In addition, we applied DLA to study the conformation and tagging of highly stretched DNA. Optimal conditions for promoting sequence-specific binding of bisPNA to an 8 bp target site were elucidated using DLA, which proved superior to electromobility shift assays. DLA was highly reproducible with a hybridized tag position localized with an accuracy of +/-0.7 microm or +/-2.1 kb demonstrating its utility for rapid mapping of large DNA at the single molecule level. Within this accuracy, DNA molecules, stretched to at least 85% of their contour length, were stretched uniformly, so that the map expressed in relative coordinates, was the same regardless of the molecule extension. (+info)
Hydrodynamic electrochemistry in 20 microL drops in the rotating sample system.
(27/1368)
The Rotating Sample System (RSS) has been conceived in the authors' laboratory as a convection platform for microliter-sized solution volumes. Convection is achieved by rotating a small drop of sample on a stationary substrate by humidified gas jets directed tangentially at the drop base with the working electrode and a liquid junction embedded in it. Simplicity and portability of the device, and substrates complete with microfabricated electrode and junction made potentially disposable, are further competitive advantages with respect to competing, conventional analytical systems. In this work the RSS' performance with variation of system parameters such as the position and size of gas jets used for sample rotation, and position of the working electrode in the substrate are studied. Trace levels of Pb could be detected with this system and is reported here. (+info)
Rapid quantitative characterization of protein interactions by composition gradient static light scattering.
(28/1368)
Two new applications of the recently developed technique of composition gradient static light scattering (CG-SLS) are presented. 1), The method is demonstrated to be capable of detecting and quantitatively characterizing reversible association of chymotrypsin and bovine pancreatic trypsin inhibitor in a solution mixture and simultaneously occurring reversible self-association of chymotrypsin at low pH in the same mixture. The values of equilibrium constants for both self- and heteroassociation may be determined with reasonable precision from the analysis of data obtained from a single experiment requiring <15 min and <1 mg of each protein. 2), Analysis of the results of a single CG-SLS experiment carried out on Ftsz, a protein that self-associates to form linear oligomers of indefinite size in the presence of guanosine diphosphate, yields the dependence of the equilibrium constant for monomer addition upon oligomer size. (+info)
Local induction of acetylcholine receptor clustering in myotube cultures using microfluidic application of agrin.
(29/1368)
During neuromuscular synaptogenesis, the exchange of spatially localized signals between nerve and muscle initiates the coordinated focal accumulation of the acetylcholine (ACh) release machinery and the ACh receptors (AChRs). One of the key first steps is the release of the proteoglycan agrin focalized at the axon tip, which induces the clustering of AChRs on the postsynaptic membrane at the neuromuscular junction. The lack of a suitable method for focal application of agrin in myotube cultures has limited the majority of in vitro studies to the application of agrin baths. We used a microfluidic device and surface microengineering to focally stimulate muscle cells with agrin at a small portion of their membrane and at a time and position chosen by the user. The device is used to verify the hypothesis that focal application of agrin to the muscle cell membrane induces local aggregation of AChRs in differentiated C2C12 myotubes. (+info)
High-speed microfluidic differential manometer for cellular-scale hydrodynamics.
(30/1368)
We propose a broadly applicable high-speed microfluidic approach for measuring dynamical pressure-drop variations along a micrometer-sized channel and illustrate the potential of the technique by presenting measurements of the additional pressure drop produced at the scale of individual flowing cells. The influence of drug-modified mechanical properties of the cell membrane is shown. Finally, single hemolysis events during flow are recorded simultaneously with the critical pressure drop for the rupture of the membrane. This scale-independent measurement approach can be applied to any dynamical process or event that changes the hydrodynamic resistance of micro- or nanochannels. (+info)
Miniature liquid flow sensor and feedback control of electroosmotic and pneumatic flows for a micro gas analysis system.
(31/1368)
Accurate liquid flow control is important in most chemical analyses. In this work, the measurement of liquid flow in microliters per minute was performed, and feedback control of the flow rate was examined. The flow sensor was arranged on a channel made in a polydimethylsiloxane (PDMS) block. The center of the channel was cooled by a miniature Peltier device, and the change in temperature balance along the channel formed by the flow was measured by two temperature sensors. Using this flow sensor, feedback flow control was examined with two pumping methods. One was the electroosmotic flow method, made by applying a high voltage (HV) between the reagent and waste reservoirs; the other was the piezo valve method, in which a micro-valve-seat was fabricated in a PDMS cavity with a silicone diaphragm. The latter was adopted for a micro gas analysis system (microGAS) for measuring atmospheric H2S and SO2. The obtained baselines were stable, and better limits of detection were obtained. (+info)
Microbioassay system for an anti-cancer agent test using animal cells on a microfluidic gradient mixer.
(32/1368)
We developed a novel microbioassay system equipped with a gradient mixer of two solutions, and we applied the microfluidic system to an anti-cancer agent test using living animal cells on a microchip. A microchannel for the gradient mixing of two solutions and eight other microchannels for cell assay were fabricated on a poly(dimethylsiloxane) substrate using a soft-lithography method. The functions necessary for this bioassay, i.e., cell culturing, chemical stimulation, cell staining, and fluorescence determination, were integrated into the microfluidic chip. Eight gradient concentrations of the fluorescein solution, ranging from 1 to 98 microg/ml, were archived at 0.1 microl/min on a microchip. A stomach cancer cell line was cultured, and a cell viability assay was conducted using 5-Fluorouracil as an anti-cancer agent on the microchip. Cell viability changed according to the estimated concentration of the agent solution. With the microbioassay system, an anti-cancer agent test was conducted using living cells simultaneously in eight individual channels with the gradient concentration of the agent on a microchip. (+info)