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Recent Patents of Interest in Proteomics: Nov 16, 2006

US Patent 7,136,759. Method for enhanced accuracy in predicting peptides using liquid separations or chromatography. Inventors: Lars Kangas; Kenneth Auberry; Gordon Anderson; Richard Smith. Assignee: Battelle Memorial Institute.
Invention pertains to a method of predicting the elution time of a peptide in chromatographic and electrophoretic separations. A data set of known elution times of known peptides is first provided then a plurality of vectors is created with each vector containing a plurality of dimensions. “The elution time of any protein is then predicted by first creating a vector by assigning dimensional values for the elution time of amino acids of at least one hypothetical peptide and then calculating a predicted elution time for the vector by performing a multivariate regression of the dimensional values of the hypothetical peptide using the dimensional values of the known peptides,” according to the patent’s abstract.

US Patent 7,130,746. Computer systems and computer programs for determining protein activity levels using gene expression profiles. Inventors: Stephen Friend; Roland Stoughton. Assignee: Rosetta Inpharmatics.
The invention provides methods for determining protein activity levels in a cell by measuring the abundance of cellular constituents in a cell “in which the activity of a specific protein is to be determined so that a diagnostic profile is thus obtained; measuring abundances of cellular constituents that occur in a cell in response to perturbations in the activity of said protein to obtain response profiles and interpolating said response profiles to generate response curves; and determining a protein activity level at which the response profile extracted from the response curves best fits the measured diagnostic profile, according to some objective measure,” authors say in the patent’s abstract.

US Patent 7,129,333. Glycoprotein synthesis. Inventors: Peter Schultz; Lei Wang; Zhiwen Zhang. Assignee: Scripps Research Institute.
The invention pertains to methods of making glycoproteins, both in vitro and in vivo. One method involves incorporation an unnatural amino acid into a protein and attaching saccharide moieties to the unnatural amino acid. The other involves incorporating an unnatural amino acid that includes saccharide moieties into a protein.

US Patent 7,125,685. Stable isotope, site-specific mass tagging for protein identification. Inventor: Xian Chen. Assignee: Los Alamos National Security.
The invention pertains to a method for increasing the specificity, accuracy, and efficiency of the assignments of particular proteolytic peptides and consequent protein identification.