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BioInform s Patent Roundup: Recent Patents of Interest in Bioinformatics: Aug 11, 2003

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US Patent 6,594,587. Method for analyzing biological elements. Inventor: Manor Askenazi. Assignee: Monsanto Technology.

Protects a method to determine associations among a set of biological elements using an algorithm that is capable of generating a Steiner tree — a minimum-weight tree that connects a designated set of vertices in a weighted graph.


US Patent 6,598,013. Method for reducing cross-talk within DNA data. Inventors: Cristian Domnisoru, Mohamad Musavi. Assignee: University of Maine

Protects an algorithm for reducing crosstalk between DNA data streams in automatic base-calling. Raw DNA data is filtered using a multi-component analysis that is applied to the difference of the signal intensity on each of the raw DNA data signals to remove cross talk between the signals.


US Patent 6,600,996. Computer-aided techniques for analyzing biological sequences. Inventors: Teresa Webster, MacDonald Morris, Michael Mittmann, David Lockhart, Ming-Hsiu Ho, Derek Bernhart, Luis Jevons. Assignee: Affymetrix.

Protects a computer system to analyze hybridization intensities in order to indicate hybridization affinity between nucleic acid probes and a sample nucleic acid sequence in order to call bases in the sample sequence. The system may also analyze hybridization intensities to monitor gene expression.


US Patent 6,601,050. Trainable adaptive focused replicator network for analyzing data. Inventor: Wasyl Malyj. Assignee: Large Scale Biology Corporation.

Protects adaptive focused replicator networks (AFRNs) — sets of array elements that can be trained to replicate a predetermined sub-group of data. According to the inventors, AFRNs are applicable for processing scanned electropherograms in automatic sequencers.


US Patent 6,604,092. Expert system utilizing a knowledge base and design of experiment (DOE) techniques. Inventor: Lisa Stewart. Assignee: Lisa Stewart.

Covers a protocol-design tool that comprises a user interface with statistical methods and knowledgebases that incorporate previously optimized protocol methods and baseline data. The tool is applicable for PCR protocol methods, according to the inventor.

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The Scan

Single-Cell Sequencing Points to Embryo Mosaicism

Mosaicism may affect preimplantation genetic tests for aneuploidy, a single-cell sequencing-based analysis of almost three dozen embryos in PLOS Genetics finds.

Rett Syndrome Mouse Model Study Points to RNA Editing Possibilities

Investigators targeted MECP2 in mutant mouse models of Rett syndrome, showing in PNAS that they could restore its expression and dial down symptoms.

Investigators Find Shared, Distinct Genetic Contributors to Childhood Hodgkin Lymphoma

An association study in JAMA Network Open uncovers risk variants within and beyond the human leukocyte antigen locus.

Transcriptomic, Epigenetic Study Appears to Explain Anti-Viral Effects of TB Vaccine

Researchers report in Science Advances on an interferon signature and long-term shifts in monocyte cell DNA methylation in Bacille Calmette-Guérin-vaccinated infant samples.