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Nanogen, Agilent Technologies, Rosetta Inpharmatics, BioDiscovery, Linden Technologies, Monsanto Technology, Quantum Dot

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Nanogen of San Diego has received US Patent No. 6,838,053, “Platinum silicide permeation layer device with microlocations.” The patent covers electronically addressable microchips having covalently bound permeation layers and methods of making such covalently bonded permeation layers to microchips. The covalent bonding is derived from combining the use of electrodes with silane derivatives. Such chemistry provides the ability to apply an electronic bias to the electrodes of the microchip while preventing permeation layer delaminating from the electrode surface.


Agilent Technologies of Palo Alto, Calif., has received US Patent No. 6,835,938, “Biopolymer array substrate thickness dependent automated focus-distance determination method for biopolymer array scanners.” A method and system for determining a biopolymer array substrate thickness dependent optimal focus distance for scanning a molecular array by a molecular array scanner are covered. Also disclosed in the patent are methods of determining the thickness of a biopolymer array substrate using a position sensitive device component of a biopolymer array scanner. The invention can be used in a variety of applications, including genomic and proteomic applications.


Rosetta Inpharmatics of Seattle, Wash., has received US Patent No. 6,839,635, “Method and system for analyzing biological response signal data.” Biological datasets are selected from an active biological viewer window on a computer display and projected onto one or more other active biological viewers on the display. The selected data is highlighted in the destination biological viewers using contrast or color differentiation from other data appearing in the destination windows. Systems, methods, and computer program products for displaying hierarchical cluster trees from biological signal profiles in a hyperbolic display fashion are disclosed. Systems, methods, and computer program products also are disclosed for precomputing correlation data between biological signal-profile data when the experiments are added to a biological response database, thereby eliminating the need for real-time computation of correlation coefficients by a user computer.


BioDiscovery of Los Angeles has received US Patent No. 6,839,454, “System and method for automatically identifying sub-grids in a microarray.” The patent covers a digital image processing-based system and method for quantitatively processing a plurality of nucleic acid species expressed in a microarray. The microarray is a grid of a plurality of sub-grids of the nucleic acid species. The system includes a scanner that has a digital sensor that scans the microarray and transmits from an output a digital image of the microarray, and a computer that receives the digital image of the microarray from the scanner and then processes the digital image, identifying each of the microarray’s sub-grids.


Linden Technologies of Woburn, Mass., has received US Patent No. 6,838,447, “Particulate compositions for chemical synthesis.” Disclosed are compositions that include triboelectrically chargeable nucleotide particles of less than 50 µm diameter and carrier particles. In one example, a substrate is selectively patterned with the compositions by transfer from a selectively charged surface. The compositions can be used to synthesize nucleic acid arrays.


Monsanto Technology of St. Louis has received US Patent No. 6,838,244, “Fluorescent oligonucleotides and uses thereof.” The patent covers oligonucleotide molecules labeled with a plurality of fluorophores of one or more types embedded in the backbone of the oligonucleotide, wherein at least one of the fluorophores is not located at either the 3’ or 5’ terminus of the oligonucleotide. The invention further provide methods for using the subject labeled oligonucleotides in detecting biological molecules, sequencing DNA molecules, and particularly generating cDNA molecules for character-izing the differential expression of genes.


Quantum Dot of Hayward, Calif., has received US Patent No. 6,838,243, “Methods and compositions for polynucleotide analysis using generic capture sequences.” Methods, compositions, and articles of manufacture for assaying a sample for an amplification product from a target polynucleotide are covered by the patent. An amplification reaction is used to produce the amplification product from the target polynucleotide so that it can be used to indirectly assay the sample for the target polynucleotide. A sample suspected of containing the target polynucleotide is contacted with first and second primers to amplify the target polynucleotide; the first primer comprises a tag sequence, the complement of which is formed on the opposite strand during amplification and is referred to as a capture sequence. Methods of detecting the amplification product produced also are provided, as are amplification product assay arrays. The methods are particularly useful in multiplex settings where a plurality of target polynucleotides are to be assayed. The patent also covers related reagent kits.

 

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