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BioInform s Patent Roundup: Recent Patents in Bioinformatics: Oct 25, 2004


US Patent 6,807,491. Method and apparatus for combining gene predictions using Bayesian networks. Inventors: Vladimir Pavlovic, Simon Kasif, Ashutosh Garg. Assignee: Hewlett-Packard Development Co.

Covers a computer-based method that automates gene prediction in a genomic sequence using a Bayesian network approach that combines intermediate gene predictions to form a final gene prediction. The final gene prediction accounts for dependencies between individual expert systems and dependencies between adjacent parts of the subject genomic sequence, according to the inventors.

US Patents 6,801,861 and 6,804,611. Apparatus and method for automated protein design. Inventors: Stephen Mayo, Bassil Dahiyat, Benjamin Gordon, Arthur Street. Assignee: California Institute of Technology.

Protects a computational method for quantitative protein design and optimization that comprises the steps of receiving a protein backbone structure with variable residue positions, establishing a group of potential rotamers for each of the variable residue positions, and analyzing the interaction of each of the rotamers with all or part of the remainder of the protein backbone structure to generate a set of optimized protein sequences.

US Patent 6,801,859. Methods of characterizing drug activities using consensus profiles. Inventors: Stephen Friend, Roland Stoughton, Yudong He. Assignee: Rosetta Inpharmatics.

Protects methods for enhanced detection of biological response profiles, such as gene expression patterns, in response to different drug treatments.

The patent also describes th use of a “consensus profile,” which describes a particular class or type of biological response, to describe the biological response of a particular group or class of drugs or an “ideal” biological response, such as one associated with a desired therapeutic effect.

US Patent 6,799,122. Method for identifying polymorphic markers in a population. Inventor: Andrew Benson. Assignee: Conagra Grocery Products.

Protects a method for the identification of polymorphic markers in a population, based on genotypically characterizing a first sample of a population, selecting one or more individuals of the first sample based upon the genotypic characterization, fabricating a microarray with genomic DNA from each individual selected, and genotyping a second sample of the population using each fabricated microarray as a reference.

The patent also covers a method for identifying unique bits among a plurality of bit strings.

US Patent 6,799,121. Sequencing of peptides by mass spectrometry. Inventors: Ivan Chu, Tai-Chu Lau, Michael Siu. Assignee: York University.

Protects a method for semiautomatic sequencing of argentinated oligopeptides based on a search algorithm that identifies a triplet peak relationship in a product ion spectrum of the oligopeptide, according to the patent.


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The Scan

UK Pilot Study Suggests Digital Pathway May Expand BRCA Testing in Breast Cancer

A randomized pilot study in the Journal of Medical Genetics points to similar outcomes for breast cancer patients receiving germline BRCA testing through fully digital or partially digital testing pathways.

Survey Sees Genetic Literacy on the Rise, Though Further Education Needed

Survey participants appear to have higher genetic familiarity, knowledge, and skills compared to 2013, though 'room for improvement' remains, an AJHG paper finds.

Study Reveals Molecular, Clinical Features in Colorectal Cancer Cases Involving Multiple Primary Tumors

Researchers compare mismatch repair, microsatellite instability, and tumor mutation burden patterns in synchronous multiple- or single primary colorectal cancers.

FarGen Phase One Sequences Exomes of Nearly 500 From Faroe Islands

The analysis in the European Journal of Human Genetics finds few rare variants and limited geographic structure among Faroese individuals.