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Recent Patents of Interest in Proteomics: Apr 5, 2007

US Patent 7,200,494. Method and apparatus for chromatographic data processing. Inventors: Masahito Ito and Kisaburo Deguchi. Assignee: Hitachi.
A chromatic analyzer facilitates curve filling by the linear leas-square method for a chromatogram containing a plurality of overlapping peaks. A chromatographic data processor "executes fitting processing to each peak in an arbitrary time region having the plurality of peaks of the chromatogram, starting from the front or back side of time region, and the processed peaks are subtracted from the chromatogram in the time region so that the plurality of peaks in the chromatogram can be separated from one another," according to the abstract.

US Patent 7199,222. Glycoprotein synthesis. Inventors: Peter Shultz; Lei Wang; Zhiwen Zhang. Assignee: The Scripps Research Institute.
Invention includes methods making glycoproteins, in vitro and in vivo. One method calls for incorporating an unnatural amino acid into a protein and attaching at least one saccharide moiety to the unnatural amino acid. Another method involves incorporating an unnatural amino acid that includes a saccharide into a protein. Additional sugars are not needed to modify the proteins made by either method.

US Patent 7,198,900. Multiplex detection compositions, methods, and kits. Inventors: Timothy Woudenberg; Dar Bahatt: Muhammad Sharaf; Timothy Liu; Serguei Ermakov; Charles Connell; Jens Hyldig-Nielsen. Assignee: Applera.
Invention pertains to the detection of analytes, particularly biomolecules in samples, typically in multiplex detection formats.

US Patent 7,198,896. Immunoaffinity isolation of modified peptides from complex mixtures. Inventors: John Rush; Hui Zhang; Xiangming Zha; Michael Comb; Yi Tan. Assignee: Cell Signaling Technology.
Invention pertains to methods for isolating a modified peptide from a complex mixture of peptides.

US Patent 7,197,402. Determination of molecular structures using tandem mass spectrometry. Inventor: Robert Mistrik; Assignee: Highchem.
Invention pertains to methods for determining the chemical structures, substructures and/or ion structural arrangement of unknown or partially structurally characterized compounds from MS data. The methods involve elucidating the molecular structures of those compounds by identifying the ions generated from the compounds by use of tandem MS and a library search of structurally characterized tandem product spectra from known ions for specific matches.

US Patent 7,197,401. Peak selection in multidimensional data. Inventor: Curtis Hastings. Assignee: PPD Biomarker Discovery Sciences
Invention pertains to an automatic peak selection method for multidimensional data that selects peaks from noisy data. The method computes local noise thresholds for each one-dimensional component of the data. Each point has a local noise threshold for each dimension of the data set. A point is selected as a candidate peak only if its value exceeds all of the applied local noise thresholds.

US Patent 7,195,891. Methods and compositions of modulating proteins modified in preconditioning against ischemia/hypoxia. Inventors: Jennifer Van Eyk; Steven Elliott; David Arrell. Assignee: Queen’s University at Kingston.
Invention pertains to methods for diagnosing and monitoring “monitoring preconditioning or ischemic, hypoxic, ischemic/reperfusion and hypoxic/reperfusion conditions or the ability of a cell, tissue or organ to survive injury by measuring modulation of one or more of these preconditioning proteins,” according to the abstract. Proteins modified by pharmacological preconditioning are provided.

US Patent 7,192,720. Array-based epitope-captured antibody display. Inventor: William Dower and Steven Cwirla. Assignee: XenoPort.
Invention pertains to methods of detecting target proteins in a sample. Included is a replicable genetic package, a protein displayed on an exterior surface of the package expressed from a heterologous nucleic acid borne by the package, and at least one antibody complexed with the expressed protein having an open binding site for a target protein. A segment of the nucleic acid encodes for an epitope shared by the expressed polypeptide and the target protein. “By determining the sequence of the segment of the heterologous nucleic acid of a package within a complex, one can identify the target protein since the segment encodes for an epitope that is shared by the expressed and target proteins,” according to the abstract.

US Patent 7,191068. Proteomic analysis of biological fluids. Inventors: Ron Rosenfeld, Sri Nagalla, Mike Gravett. Assignee: Proteogenix.
Invention pertains to the identification of the proteome of amniotic fluid and the correlation of characteristic changes in the normal proteome with pathologic maternal/fetal conditions. It can also be used to identify the proteomes of other biological fluids.

US Patent 7,189,519. Bead-based detection of ligand GPCR-G protein complexes. Inventors: Larry Sklar; Tione Buranda; Daniel Cimino; Alex Key; Richard Neubig; Peter Simons; Eric Prossnitz; Mei Shi. Assignee: University of New Mexico’s Science and Technology Corp.; University of Michigan.
The invention provided a general approach for G protein coupled receptors for use in defining agonists and antagonists as well as the specificity of receptor coupling to G protein subunits. Methods described are compatible with high-throughput flow cytometry.

US Patent 7,189,370. Apparatus and methods for high throughput and high-resolution assays. Inventor: Shaorong Liu. Assignee: Michrochem Solutions.
Invention pertains to a device that integrates 1D separation to another dimensional separation. The device also integrates the operation of the 2D separation. The first dimensional separation is done in one column, the second dimensional separation in multiple separation columns. Integration is achieved by using a one-, two-, or three-piece interface.

The Scan

Alzheimer's Risk Gene Among Women

CNN reports that researchers have found that variants in MGMT contribute to Alzheimer's disease risk among women but not men.

Still Hanging Around

The Guardian writes that persistent pockets of SARS-CoV-2 in the body could contribute to long COVID.

Through a Little Spit

Enteric viruses like norovirus may also be transmitted through saliva, not just the fecal-oral route, according to New Scientist.

Nature Papers Present Method to Detect Full Transcriptome, Viruses Infecting Asgard Archaea, More

In Nature this week: VASA-seq approach to detect full transcriptome, analysis of viruses infecting Asgard archaea, and more.