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IP Update: Recent Patents Awarded to Waters, IBM, and More

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Recent Patents of Interest in Proteomics

US Patent No. 8,168,943. Data-dependent selection of dissociation type in a mass spectrometer. Inventors: Jae Schwartz, John Syka, Andreas Huhmer, Joshua Coon. Assignee: Thermo Finnigan

Covers methods of data-dependent mass spec analysis, including determining an ion's charge state and automatically selecting a dissociation method based on that charge state.


US Patent No. 8,168,396. Methods for detecting pre-diabetes and diabetes using differential protein glycosylation. Inventors: Srinivasa Nagalla, Charles Roberts. Assignee: DiabetOmics

Covers methods of identifying patients with diabetes or at risk of developing diabetes by analyzing glycosylation patterns and expression levels of proteins in biological fluid.


US Patent No. 8,168,203. Shigella protein antigens and methods. Inventors: Cecil Czerkinsky, Dong Wook Kim. Assignee: International Vaccine Institute

Covers protein antigens IcsP2 and SigA2 from Shigella as well as antibodies and DNA probes against the antigens that can be used for diagnosis of Shigella and enteroinvasive Escherichia coli infections.


US Patent No. 8,165,820. Methods and apparatus for performing retention-time matching. Inventors: Marc Gorenstein, Scott Geromanos, Jeffrey Silva, Guo-Zhong Li. Assignee: Waters

Covers a method of matching a precursor ion with one or more product ions by normalizing input data sets in accordance with a single retention time for a precursor ion and determining which product ions are within a retention time window with respect to this single retention time.


US Patent No. 8,163,552. Adenocarcinoma specific antibody SAM-6, and uses thereof. Inventors: Heinz Vollmers, Hans-Konrad Muller-Hermelink. Assignee: Patrys Limited

Covers a polypeptide produced by the hybridoma SAM-6 that can be used for the diagnosis and treatment of neoplasms.


US Patent No. 8,163,511. Methods for the identification of LRRK2 interacting molecules. Inventors: Gerard Drewes, Carsten Hopf, Valerie Reader. Assignee: CellZome

Covers a competition binding assay-based method of identifying LRRK2 inhibitors using indol ligand 91.


US Patent No. 8,163,481. Method of extracting chromatin fractions from intact cells. Inventors: Pedro Rodriguez-Collazo, Harrison Leuba, Jordanka Zlatanova. Assignees: University of Pittsburgh, University of Wyoming

Covers methods of isolating chromatin fractions of nucleoproteins containing histone H1, H2A, H2B, H3, and H4 proteins or isolating these histones from intact cells with the original patterns of covalent protein modifications attached.


US Patent No. 8,160,819. Rapid identification of proteins and their corresponding source organisms by gas phase fragmentation and identification of protein biomarkers. Inventors: Clifton Fagerquist, Leslie Harden, Brandon Garbus. Assignee: the United States of America, Department of Agriculture

Covers a method of identifying proteins using laser desorption ionization mass spectrometry and then identifying the source organisms of these proteins.


US Patent No. 8,158,930. Method for simultaneous calibration of mass spectra and identification of peptides in proteomic analysis. Inventor: Robert Grothe. Assignee: Cedars-Sinai Medical Center.

Covers a mass spec calibration system that allows for calibration in real time using the information within a sample and without the addition of specific calibrants via algorithms that iteratively estimate errors in measurement and update calibration parameters accordingly.


US Patent No. 8,158,003. Precision peak matching in liquid chromatography-mass spectroscopy. Inventor: Peicheng Du, Frank Suits. Assignee: International Business Machines.

Covers a method for identifying common peaks from unidentified peaks in different LC-MS runs, enabling extraction of information from disparate LC-MS databases.


US Patent No. 8,153,964. Ultrasound ionization mass spectrometer. Inventor: Chung-Hsuan Chen, Chen-I Wu. Assignee: Academia Sinica.

Covers a mass spectrometer that uses ultrasound to ionize analytes in a sample, allowing for soft ionization of large analytes including biological macromolecules.


US Patent No. 8,153,961. Methods for acquisition and deductive analysis of mixed fragment peptide mass spectra. Inventor: Vladimir Zabrouskov. Assignee: Thermo Finnigan.

Covers a method for analyzing polypeptide mass spectra by creating first and second sets of ions using first and second fragmentation techniques, obtaining mass spectra for these ions, and searching these against a database of fragments.


US Patent No. 8,153,389. Methods for the identification of PI3K interacting molecules and for the purification of PI3K. Inventors: Giovanna Bergamini, Andrew Cansfield, Nigel Ramsden, Gitte Neubauer. Assignee: CellZome.

Covers method of identifying a PI3K-interacting compound using phenylthiazole ligand 1.

The Scan

Germline-Targeting HIV Vaccine Shows Promise in Phase I Trial

A National Institutes of Health-led team reports in Science that a broadly neutralizing antibody HIV vaccine induced bnAb precursors in 97 percent of those given the vaccine.

Study Uncovers Genetic Mutation in Childhood Glaucoma

A study in the Journal of Clinical Investigation ties a heterozygous missense variant in thrombospondin 1 to childhood glaucoma.

Gene Co-Expression Database for Humans, Model Organisms Gets Update

GeneFriends has been updated to include gene and transcript co-expression networks based on RNA-seq data from 46,475 human and 34,322 mouse samples, a new paper in Nucleic Acids Research says.

New Study Investigates Genomics of Fanconi Anemia Repair Pathway in Cancer

A Rockefeller University team reports in Nature that FA repair deficiency leads to structural variants that can contribute to genomic instability.