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Recent Patents of Interest in Proteomics: Sep 17, 2009

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US Patent 7,586,089. Feedback fragmentation in ion trap mass spectrometers. Inventor: Ralf Hartmer. Assignee: Bruker Daltonik

"In an RF ion trap mass spectrometer, selected parent ions are fragmented by collisions or electrons, and a spectrum of the ion fragments is measured," according to the abstract. That measured spectrum is further analyzed for the presence of a dominant ion species. When a dominant ion species is present, selected parent ions are fragmented and a spectrum of ion fragment is measured again "but with an additional collision excitation of the dominant ion species. The resulting daughter ion spectrum is qualitatively improved," according to the abstract.


US Patent 7,586,088. Mass spectrometer and method of mass spectrometry. Inventors: Robert Harold Bateman; John Brian Hoyes; James Ian Langridge; Jason Lee Wildgoose. Assignee: Micromass [now Waters]

The mass spectrometer comprises an ion mobility spectrometer combined with a quadrupole mass filter "which is scanned in synchronization with the pulsing of ions into the ion mobility spectrometer, thereby enabling ions having a particular charge state to be preferentially transmitted," according to the abstract. In another embodiment of the inventions, the quadrupole mass filter is replaced with an axial time of flight mass filter and an injection electrode.


US Patent 7,585,955. Protein separation from a protein mixture. Inventors: Qing-Xiang Sang; Ziad Joseph Sahab. Assignee: Florida State University Research Foundation

Pertains to a protein-separation method in which an aqueous combination is formed, comprising the sample and ion exchange material "at a pH, which is less than the [isoelectric point] of a first fraction of the proteins in the aqueous dispersion but greater than the pI of a second fraction of the proteins in the aqueous dispersion," according to the abstract. The aqueous dispersion can then be "intensely mixed." A fraction of the proteins in the combination binds to the ion exchange material, and optionally centrifuged, causes the combination to "stratify into a concentrated solids fraction and a supernatant," which contains the fraction of the proteins that did not bind to the ion exchange material.


US Patent 7,585,943. Compositions and methods for fusion protein separation. Inventors: Sujeong Kim; Jong-Mook Kim; Song Shan Xu. Assignee: ViroMed

Presented are compositions and methods for separating fusion proteins using a peptide linker comprising a novel cleavage site.


US Patent 7,585,815. High-throughput protein production screening. Inventors: Peter Beernink; Matthew Coleman; Brent Segelke. Assignee: Lawrence Livermore National Security
Provided are methods, compositions, and kits for the cell-free production and analysis of proteins. The invention allows for the production of proteins from prokaryotic or eukaryotic sequences, including human cDNAs using PCR and in vitro transcription methods. Detection of proteins is achieved through fluorescence or immunoblot techniques.


US Patent 7,585,636. Protein subcellular localization assays using split fluorescent proteins. Inventors: Geoffrey Waldo; Stephanie Cabantous. Assignee: Los Alamos National Security

According to the abstract, the assays are conducted in living cells, do not require fixation and washing steps "inherent in existing immunostaining and related techniques," and allow for rapid, non-invasive, direct visualization of protein localization in living cells. "The split fluorescent protein systems used in the practice of the invention generally comprise two or more self-complementing fragments of a fluorescent protein, such as GFP, wherein one or more of the fragments correspond to one or more beta-strand microdomains and are used to 'tag' proteins of interest, and a complementary 'assay' fragment of the fluorescent protein."


US Patent 7,585,635. Method for detecting and analyzing protein interactions in vivo. Inventors: Mortiz Rossner; Rico Laage; Klaus-Armin Nave; Sylvia Gruenewald. Assingee; Sygnis Bioscience

Specific protein interactions are detected by a permanent signal generated by a recombinase activity or protease activity that depends on the protein interaction.


US Patent 7,582,260. Zwitterionic dyes for labeling in proteomic and other biological analyses. Inventors: Edward Dratz; Paul Grieco. Assignee: Montana State University

Pertains to compositions and methods for the labeling and identification of proteins. Provided are "highly" soluble zwitterionic dye molecules "where the dyes and associated side groups are non-titratable and maintain their net zwitterionic character over a broad pH range," according to the abstract.


US Patent 7,577,538. Computational method and system for mass spectral analysis. Inventor: Yongdong Wang. Assignee: Cerno Bioscience

Pertains to a method for analyzing data from a mass spectrometer "including obtaining calibrated mass spectral data involving at least one ion with its isotopes, by processing raw spectral data; obtaining library spectral data which has been processed to form calibrated library data; and performing a regression analysis, preferably using matrix operations, between the calibrated mass spectral data and the calibrated library data; and reporting at least one regression coefficient representative of a relative concentrations of a component in a sample which generated the raw spectral data," according to the abstract. The invention also is directed a mass spec system that operates in accordance with the method, a data library of transformed mass spectra, and a method for producing the data library.


US Patent 7,576,323. Point-of-care mass spectrometer system. Inventor: Robert James Cotter. Assignee: Johns Hopkins University

The mass spectrometer system described has a sampling system, an ionization component to receive a sample for analysis from the sampling system, a mass analyzer to receive a source of ions for analysis from the ionization component, and a detector for ions from the mass analyzer and to generate an output signal.


US Patent 7,575,935. Retentate chromatography and protein chip arrays with applications in biology and medicine. Inventors: William Hutchens; Tai-Tung Yip. Assignee: Bio-Rad Laboratories

Provided are methods of retentate chromatography for resolving analytes in a sample. Analytes are adsorbed to a substrate "under a plurality of different selectivity condition," according to the abstract. Analytes retained on the substrate by desorption spectrometry are then detected.

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