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ProteoMonitor s IP Roundup: Recent Patents of Interest in Proteomics: May 20, 2005

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US Patent No. 6,875,618. Method for phosphorous quantitation. Inventors: Dmitry Bandura, Vladimir Baranov, Scott Tanner. Assignee: MDS

This invention provides a method to determine the degree of phosphorylation in a sample using a mass spectrometer. The method involves introducing the analyte-containing sample into an inductively coupled plasma mass spectrometer having a reactive collision cell, then reacting analyte ions with a reactive gas, thus producing product ions with a different mass-to-charge ratio than the analyte ions, which provide interference-free detection. The method also involves detecting and measuring a signal or combination of signals from a phosphorous-containing ions, and computing ratios from the phosphorous-containing ions to the signal or combination of signals from the second ions.


US Patent No. 6,872,574. Proteomic analysis. Inventors: Benjamin Cravatt, Erik Sorensen, Matthew Patricelli, Martha Lovato, Gregory Adam. Assignee: The Scripps Research Institute.

This invention provides methods for analyzing proteomes based on the use of probes that have specificity to the active forms of proteins, particularly enzymes and receptors. Activity-based probes can be identified in various ways, including screening compound libraries for the identification of lead molecules. ABPs are used to screen for one or more desired biological activities or target proteins.


US Patent No. 6,858,840. Method of ion fragmentation in a multipole ion guide of a tandem mass spectrometer. Inventors: Vadym Berkout, Vladimir Doroshenko. Assignee: Science & Engineering Services.

This invention is a system and method for fragmenting molecular ions in tandem mass spectrometers. The system includes a mass selector, at least one multipole-ion guide and a mass analyzer. Using the system, precursor ions are selected with a desired mass-to-charge ratio. Electrons are then injected into the multipole-ion guide, and precursor ions are fragmented into product ions via electron-capture dissociation from the injected electrons. The product ions are passed to a mass analyzer for mass analysis.


US Patent No. 6,858,435. Method and system for peak parking in liquid chromatography-mass spectrometer (LC-MS) analysis. Inventors: Jean-Perre Chervet, Remco Swart, Johannes Petrus Cornelus Vissers. Assignee: Dionex.

This invention provides a reconfigurable, multi-mode post-column analysis system that enables improved resolution of liquid chromatography detection data. The invention includes a two-position micro switching valve unit. In normal, or MS mode, the unit is configured to provide fluid communication for column eluent that has passed through a flow cell to directly enter a mass spectrometer unit. In peak parking mode, the unit is configured to interrupt normal mode column flow and halt the gradient, while flowing the detection peak of interest at a substantially reduced flow rate through the MS unit. Mode changes can be carried out for each chromatogram detection peak.


US Patent No. 6,881,586. Retentate chromatography and protein-chip arrays with applications in biology and medicine. Inventors: William Hutchens, Tai-Tung Yip. Assignee: Ciphergen Biosystems.

This invention provides devices and methods for retentate chromatography — a combinatorial approach that provides high resolution of analytes in complex mixtures through the use of multi-dimensional separation methods. The methods involve adsorbing the analytes to a substrate under a plurality of different selectivity conditions, and detecting the analytes retained on the substrate by desorption spectrometry. The invention provides a unified operating system for the discovery or diagnosis of gene function, protein function, or the function of macromolecular assemblies.


US Patent No. 6,873,915. Peak selection in multidimensional data. Inventor: Curtis Hastings. Assignee: Surromed.

An automatic peak-selection method for multidimensional data that selects peaks from noisy data, such as two-dimensional liquid chromatography-mass spectrometry data, is described in this invention. The method computes local noise thresholds for each one-dimensional component of the data. Each point has a local noise threshold applied to it for each dimension of the data set, and a point is selected as a candidate peak only if its value exceeds all of the applied local noise thresholds. Contiguous candidate peaks are clustered into actual peaks.

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