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Recent Patents of Interest in Proteomics: Jan 25, 2007

US Patent 7,167,819. Method of determining the three-dimensional shape of a macromolecule. Inventors: Bradford Gibson; Irwin Kuntz; Ning Tang; Gavin Dollinger; Connie Oshiro; Judith Hempel; Eric Taylor; Malin Young. Assignee: Chiron and the Regents of the University of California.
Invention pertains to a method for determining the 3D conformation of a protein.

US Patent 7,166,441. Method and apparatus for the identification and quantification of biomolecules. Inventors: Timothy Nadler; Kenneth Parker; George Vella; BarrieWagenfeld; Yulin Huang; Robert Lotti. Assignee: PerSeptive Biosystems (now called Applied Biosystems).
According to the abstract, polypeptides are electroblotted through a digestion membrane to a composite capture membrane that can be analyzed by mass spectrometry. The molecular weights are then used to identify the polypeptide originated from the fragments. The polypeptide fragments are collected onto a composite capture membrane that is chemically treated.

US Patent 7,166,447. Probe for analyzing protein-protein interaction and method of analyzing protein-protein interactions with the use of the same. Inventors: Yoshio Umezawa; Takeaki Ozawa. Assignee: Japan Science and Technology Corp.
Patent pertains to a probe suitable for analyzing protein-protein interactions and a method to do so using the probe. “With the probe, protein splicing is caused by protein-protein interaction, and a physicochemically or biochemically detectable protein is regenerated,” according to the patent abstract.

US Patent 7,166,436. Differential labeling for quantitative analysis of complex protein mixtures. Inventors: Paul Haynes; Jing Wei; John Yates; Nancy Andon. Assignee: Syngenta Participations.
Invention pertains to a method to simultaneously identify and determine the levels of expression of proteins containing cysteine. The method pertains to normal and perturbed cells. It also describes a method for proteomic analysis, a process for preparing fusion proteins, and related compounds and reagents.

US Patent 7,164,533. Hybrid random bead/chip based microarray. Inventors: John Moon; Alan Kersey; Martin Putnam; Tuo Li. Assignee: CyVera.
Invention pertains to a method and apparatus for performing an assay process. Microbeads are provided in a solution and placed on an alignment substrate where the codes of the microbeads and their positions are read. Fluorescence on each microbead and their positions are also read on the alignment substrate.

US Patent 7,163,803. Method for characterizing polypeptides. Inventors: Christian Hamon. Andrew Thompson; Thomas Neumann; Robert Johnstone; Abdul Karim Abed Mohammed. Assignee: Electrophoretics Ltd.

Invention pertains to a method for characterizing polypeptides. The first step is to reduce cystein disulphide bridges in the polypeptide to form free thiols and capping them. The polypeptide is then cleaved with a sequence-specific cleavage reagent to form peptide fragments. Next, the cleavage reagent is optionally deactivated. Epsilon-amino groups that are present are capped with a lysine reactive agent, followed by analysis of peptide fragments by mass spectrometry to form a mass fingerprint of the polypeptide. Finally, the polypeptide is identified from the mass fingerprint.

The Scan

NFTs for Genome Sharing

Nature News writes that non-fungible tokens could be a way for people to profit from sharing genomic data.

Wastewater Warning System

Time magazine writes that cities and college campuses are monitoring sewage for SARS-CoV-2, an approach officials hope lasts beyond COVID-19.

Networks to Boost Surveillance

Scientific American writes that new organizations and networks aim to improve the ability of developing countries to conduct SARS-CoV-2 genomic surveillance.

Genome Biology Papers on Gastric Cancer Epimutations, BUTTERFLY, GUNC Tool

In Genome Biology this week: recurrent epigenetic mutations in gastric cancer, correction tool for unique molecular identifier-based assays, and more.