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Wisconsin Alumni Research Foundation, BioArray Solutions, Bio-Rad Laboratories, Aperio Technologies, Ocimum Biosolutions, Illumina

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Wisconsin Alumni Research Foundation of Madison has received US Patent No. 7,427,484, “Global regulator of secondary metabolite biosynthesis and methods of use.” The patent describes polypeptides and nucleic acids that identify and encode LaeA, a regulator of fungal secondary metabolite production that exhibits global control over secondary metabolite biosynthetic gene clusters. The patent also claims vectors, host cells, methods of increasing the production of secondary metabolites in an organism, and methods of identifying novel secondary metabolite biosynthesis gene clusters. Additionally, the patent claims a method where nucleic acids representative of the expressed genes of the non-transformed fungus are immobilized on a substrate and are hybridizable elements in a microarray.
 

 
BioArray Solutions of Warren, NJ, has received US Patent No. 7,427,512, “Light-controlled electrokinetic assembly of particles near surfaces.” The patent provides a set of fundamental operations enabling interactive control over the creation and placement of planar arrays of several types of particles and biomolecules and the manipulation of array shape and size. Additionally, the patent enables sample preparation and handling for diagnostic assays and biochemical analysis in an array format, and the functional integration of these operations. A procedure for the creation of material surfaces with desired properties and for the fabrication of surface-mounted optical components is also claimed.
 

 
Bio-Rad Laboratories of Hercules, Calif., has received US Patent No. 7,428,322, “Imaging method and apparatus.” The patent claims a method for measuring a response to a stimulus of a plurality of sample spots using a measuring system having a measurement range to generate an image of the sample in digital space. According to the patent, the image may be a microarray image. The method includes, for each sample, while measuring the response, varying the stimulus to include at least one stimulus value where the measured response corresponds to a value in an intermediate portion of the measuring range, and storing a value of the measured response that corresponds to a value in the intermediate portion of the measurement range, and the stimulus value that produced that value of the measured response.
 

 
Aperio Technologies of Vista, Calif., has received US Patent No. 7,428,324, “System and method for data management in a linear-array-based microscope slide scanner.” The patent claims a data-management system and methods for processing, storing, and viewing the imagery data that is produced by a linear-array-based microscope slide scanner. The system can receive, process, and store imagery data produced by the linear-array-based microscope slide scanner at approximately 3 GB per minute. The data are received as a series of overlapping image stripes and combined into a contiguous baseline image, the patent states. The baseline image is then logically mapped into a plurality of regions that are individually addressed to facilitate viewing and manipulation of the baseline image. According to the patent, the data management tool is useful for applications such as telemedicine, telepathology, microscopy education, and the analysis of high-value specimens, such as tissue arrays.
 

 
Ocimum Biosolutions of Gaithersburg, Md., has received US Patent No. 7,428,554, “System and method for determining matching patterns within gene expression data.” The patent claims a computer-based system and method for retrieving information from a number of data sources on a computer network containing biological data. The network database is organized in a b-tree configuration having a plurality of sample nodes. Each sample node includes a curated data set of pre-formatted and pre-computed summary biological data obtained from at least one biological sample. The sample nodes are organized in a hierarchical arrangement according to clinical relevance. A set of attributes is assigned to each sample node to facilitate navigation through the database using a browser accessible through a graphical user interface. The set of attributes including at least one taxonomy designation selected from the group including tissues, diseases, medications and sample parameters. Search results that are produced include automated reports of the summary biological data stored in the sample nodes and custom reports generated using the summary biological data.
 

 
Illumina has received US Patent No. 7,427,673, “Labeled nucleotides.” The patent claims nucleosides and nucleotides that are linked to detectable labels via a cleavable linker group. A nucleoside or nucleotide molecule is linked to a detectable label via a cleavable linker group attached to the base, rendering the molecule useful in techniques using labeled nucleosides or nucleotides, for example, sequencing reactions, polynucleotide synthesis, nucleic acid amplification, nucleic acid hybridization assays, single nucleotide polymorphism studies, and other techniques using enzymes such as polymerases, reverse transcriptases, terminal transferases, or other DNA-modifying enzymes. According to the patent, the invention is useful in techniques that use labeled dNTPs, such as nick translation, random-primer labeling, end-labeling, reverse transcription, or nucleic acid amplification.

The Scan

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While sequencing individuals from a multi-generation family, researchers identified a myotonic dystrophy type 2-related short tandem repeat in the European Journal of Human Genetics.

TB Resistance Insights Gleaned From Genome Sequence, Antimicrobial Response Assays

Researchers in PLOS Biology explore M. tuberculosis resistance with a combination of sequencing and assays looking at the minimum inhibitory concentrations of 13 drugs.

Mendelian Disease Genes Prioritized Using Tissue-Specific Expression Clues

Mendelian gene candidates could be flagged for further functional analyses based on tissue-specific transcriptome and proteome profiles, a new Journal of Human Genetics paper says.

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.