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ProteoMonitor s IP Roundup: Recent Patents of Interest in Proteomics: Jun 4, 2004

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US Patent No. 6,745,204. System for electronically managing, finding, and/or displaying biomolecular interactions. Inventors: Christopher Hogue, Gary Bader. Assignee: Mount Sinai Hospital.

Covers a data storage and management system for biomolecular interactions. This consists of an internal database of biomolecular interactions defined by a chemical graph and description from an external database (specifically, BIND). The entries in the internal database are correlated with those in the external database.


US Patent No. 6,743,364. Method and system for identifying and quantifying chemical components of a mixture. Inventor: Jan van der Greef. Assignee: Nederlandse Organisatie voor Toegepast-Natuurwetenschappelijk Onderzoek TNO, Delft, The Netherlands.

Covers a method and system for evaluating data from chromatographic and mass spec data. This consists of data smoothing, data baseline correction, and the assigning of a quality factor for the chromatographic data. Correlations are made between chromatograms using multivariate analysis.


US Patent No. 6,734,023. Quantitative, high-throughput screening method for protein stability. Inventors: Terence Oas, Sina Ghaemmaghami, Kendall Powell, Michael Fitzgerald. Assignee: Duke University.

Covers MALDI MS-HX and SUPREX, methods for measuring the stability of proteins in a rapid, high-throughput fashion. The method estimates the stability of unpurified protein extracts, using MALDI. A method applying this to a test protein under native conditions is described, in which the test protein is treated with a denaturant and deuterium, then applied to a MALDI matrix, run through a mass spec — during which a change in the mass of the test protein is determined — then varying the denaturant concentration and repeating the steps. The result is quantitatively determining protein stability based on the change in mass of the test protein as a function of denaturant concentration.


US Patent No. 6,730,516. Microfluidic devices and methods. Inventors: Paul Jedrzejewski, Steffen Nock, Peter Wagner, Pierre Indermuhle, Frank Zaugg. Assignee: Zyomyx.

Covers several embodiments of a microfluidic device, primarily a microanalysis chip with at least one transfer-separation channel that has an opening in the channel bottom.


US Patent No. 6,745,134. Mass spectrometric data analyzing method, mass spectrometric data analyzing apparatus, mass spectrometric data analyzing program, and solution offering system. Inventors: Kinya Kobayashi, Kiyomi Yoshinari, Lee Chahn. Assignee: Hitachi.

Covers a method for deducing the structure of an unknown substance by identifying the structure of the parent ion. This consists of a method for analyzing mass spec data in which data on an ionized sample is acquired, dissociated ion candidates are determined by analyzing the molecular orbits of the parent ion candidates, and the data of the dissociated ion candidates and the parent ion candidates are compared with the actually measured dissociated ion data.


US Patent No. 6.745.133. Mass spectral peak identification. Inventor: Jan Axelsson. Assignee: Amersham Biosciences.

Covers a cross correlation method for obtaining the monoisotopic mass peak of an experimentally obtained mass spectrum. A sample molecule is used to create a model spectrum, and a set of correlation values are calculated from intensity values. The position of the monoisotopic peak of the model spectrum that shows the best agreement with the experimental spectrum is selected, and from the charge state of the section of the mass spectrum in question, the monoisotopic mass of the sample molecule is determined.


US Patent No. 6,744,043. Ion mobility spectrometer incorporating an ion guide in combination with an MS device. Inventor: Alexander Loboda. Assignee: MDS Inc.

Covers a hybrid mass spec comprising an ion mobility section and a mass analysis section. In the IMS section, ions are separated based on varying ion mobilities. Ions are then focused along an axis into a mass analysis section, which can be a TOF mass analyzer or a quadrupole rod set. A collision cell and mass analyzer can also be provided between the sections for MS/MS analysis. Using this setup, as each group of ions moves from the IMS section, one ion can be mass selected for further fragmentation and analysis of product ions. Ions can also be trapped and held after separation based on mobility characteristics in potential wells formed by a segmented rod set configuration.


US Patent No. 6,744,042. Ion trapping. Inventors: Daniel Zajfman, Oded Heber, Henrik Pedersen, Yinon Rudich, Irit Sagi, Michael Rappaport. Assignee: Yeda Research and Development, Rehovot, Israel.

Covers an ion trap in which the first and second electrode mirrors have a common optical axis. When voltage is applied, the mirrors create electric fields that reflect charged particles such that the particles oscillate between the mirrors. The ions are introduced as a beam with pre-determined parameters.


US Patent No. 6,744,040. Means and method for a quadrupole surface induced dissociation quadrupole time-of-flight mass spectrometer. Inventor: Melvin Park. Assignee: Bruker Daltonics.

Covers the means and method for selecting and transferring ions to a TOF mass analyzer by arranging multipoles such that fragmented ions can be generated by collision-induced dissociation or surface-induced dissociation. The first multipole cools the ions, and then the second multipole — preferably a quadrupole — selects the ions by m/z range, then the selected ions collide with a collision surface to produce fragment ions. Then, the fragment ions are collisionally cooled in the third multipole and delivered into a TOF mass analyzer.


US Patent No. 6,737,644. Quadrupole mass spectrometer. Inventor: Hiroto Itoi. Assignee: Shimadzu.

Covers a quadrupole mass spectrometer that includes an ion source, a quadrupole mass filter, an ion detector, an ion-converging lens between the mass filter and the ion detector, and a voltage source for the ion-converging lens. The voltage has a polarity opposite to that of the object ions and the absolute value of the voltage is larger than that of a voltage at which the converging efficiency of the object ions is the largest.


US Patent No. 6,744,041. Apparatus and method for focusing ions and charged particles at atmospheric pressure. Inventors: Edward Sheehan, Ross Willoughby. Assignee: None.

Covers methods of collecting and focusing ions generated from atmospheric pressure sources. A high transmission electro-optical surface is placed between the source and focusing regions to optimize the field geometries and strengths. Compression ratios of 5,000 can transfer almost all ions into ion beams of less than 1 mm in cross section. Other embodiments include methods and devices for improving sensitivity of mass spec analysis when coupled to AP sources.


US Patent No. 6,737,641. Mass spectrometer system. Inventor: Yoshiaki Kato. Assignee: Hitachi High-Technologies.

Covers a mass spectrometer aimed at improving the efficiency of charge reduction due to ion-ion reactions. The system includes two ion sources — one to ionize the sample, and one for producing ions of opposite polarity to the sample ions — as well as an ion deflector, an ion trap mass spectrometer, and a detector for detecting the ions ejected from the mass spectrometer. The ions from both ion sources are deflected together into the ion trap mass spec, mixed, and then detected.


US Patent No. 6,734,421. Time-of-flight mass spectrometer with multiplex operation. Inventors: Armin Holle, Jochen Franzen. Assignee: Bruker Daltonik.

Covers a TOF mass spec for the analysis of large numbers of samples using laser desorption. A special beam-focusing system focuses the laser beam into a pattern of focal points, inserts the pattern of samples into that pattern of focal points, focuses the ions generated in the focal points by an ion-optical imaging system into ion detectors so that the pattern can be measured simultaneously.


US Patent No. 6,734,022. Method and apparatus for desorption and ionization of analytes. Inventors: William Hutchens, Tai-Tung Yip. Assignee: Baylor College of Medicine.

Covers the sample probe geometry, composition, and surface chemistries that allow for the selective capture and desorption of analytes directly from a probe surface without added chemical matrix, for mass spec analysis.


US Patent No. 6,730,485. Methods for identifying ligand binding sites in a biomolecule. Inventors: Richard Griffey, Steven Hofstadler, Eric Swayze. Assignee: ISIS Pharmaceuticals.

Covers methods of identifying ligand binding sites in a target molecule and methods of determining whether a particular site in the molecule is at or near the ligand binding site. Ligand binding affinities are compared using mass spec analysis, and the modified molecules incorporate a modification that modulates ligand binding affinity.