Abstract: Assays using non-natural bases are described. In one embodiment, the method involves contacting a sample suspected of containing the target nucleic acid with a polymerase and first and second primers; amplifying the target nucleic acid by PCR using the first and second primers to generate an amplification product having a double-stranded region and a single-stranded region that comprises the non-natural base; contacting the sample with a reporter comprising a label and a non-natural base that is complementary to the non-natural base of the single-stranded region; annealing at least a portion of the reporter to the single-stranded region of the amplification product; and correlating a signal of the label with the presence of the target nucleic acid in the sample. The invention also provides corresponding kits for use in detecting target nucleic acids in a sample.
Type:
Grant
Filed:
March 31, 2010
Date of Patent:
August 27, 2013
Assignee:
Luminex Corporation
Inventors:
David J. Marshall, James R. Prudent, Christopher B. Sherrill, Gideon Shapiro, Jennifer K. Grenier, Craig S. Richmond, Simona Jurczyk, Jerod L. Ptacin
Abstract: Compositions, reaction mixtures, and methods for performing an amplification reaction, including multiplex amplification reaction, wherein the method comprises using one or more amplification oligomer complexes comprising linked first and second amplification oligomer members. In one aspect, the amplification oligomer complex is hybridized to a target nucleic acid, the target nucleic acid with hybridized amplification oligomer complex is then captured, and other components are washed away. Target sequences of the target nucleic acids are pre-amplified to generate a first amplification product. The first amplification product is amplified in one or more secondary amplification reactions to generate second amplification products.
Type:
Grant
Filed:
July 1, 2010
Date of Patent:
August 20, 2013
Assignee:
Gen-Probe Incorporated
Inventors:
Steven T. Brentano, Dmitry Lyakhov, Norman C. Nelson, James D. Carlson, Michael M. Becker, Lyle J. Arnold, Jr.
Abstract: Oligonucleotides for genotyping the thymidylate synthase gene are provided. The number of tandem repeats in the promoter region of the thymidylate synthase gene can be identified based on the hybridization of an oligonucleotide of the invention to the genomic DNA of a subject. Therefore, the genotype of the thymidylate synthase gene can be identified based on the number of tandem repeats. The genotype relates to the responsiveness of a subject towards an antitumor agent.
Abstract: A method is disclosed for the determination of 5-ASA efficacy in preventing and/or treating CRC in a mammalian, which comprises the analysis of the inhibition of the ?-catenin pathway in presence of 5-ASA. More in details, the method comprises measuring the expression of at least one gene involved in the regulation of the ?-catenin signalling pathway, such as ?-protocadherin, E-cadherin, ?-catenin, Axin1, ICAT, p21waf?1 and the expression of onco-suppressor genes, such as KLF4 and CEBP?. Gene expression can be measured in accordance to the methods commonly available in the art such as QRT-PCR and immunohistochemistry.
Abstract: Development of acquired resistance to the therapeutic effects of an epidermal growth factor (EGFR) tyrosine kinase inhibitor in a patient that is suffering from a cancer is predicted by: (a) obtaining a sample from the patient, wherein the cancer harbors a somatic gain-of-function mutation in the tyrosine kinase domain of EGFR that enhances the sensitivity of the cancer to the tyrosine kinase inhibitor, and (b) testing the sample to determine whether the gene encoding EGFR is present in a mutant form that encodes a T790M mutant of EGFR in addition to the somatic gain of function mutation. A finding that the mutant form is present indicates that the cancer has become or will become resistant to the EGFR tyrosine kinase inhibitor.
Type:
Grant
Filed:
October 17, 2011
Date of Patent:
August 6, 2013
Assignee:
Memorial-Sloan Kettering Cancer Center
Inventors:
Harold Varmus, Katerina Politi, William Pao, Vincent Miller
Abstract: The present invention relates to the diagnostic methods for identification of the single causative agent or more than one causative agent of ocular and nervous system infections among many probable pathogens, which can cause the infection. All the pathogens affecting a discrete area of eye or nervous system generally cause same clinical manifestations or syndromes. The present invention relates to detection and discrimination of the pathogen among the set of probable pathogens in a single test without resorting to a battery of tests each being directed at detection of one pathogen. The current invention aims at the syndrome based diagnostic replacing the diagnostics based on detection of individual pathogens.
Type:
Grant
Filed:
May 27, 2008
Date of Patent:
June 18, 2013
Assignee:
Council of Scientific & Industrial Research
Abstract: The present invention generally relates to methods for identifying nucleic acid ligands of a target molecule. In certain embodiments, the invention provides methods for identifying a nucleic acid ligand of a target molecule from a candidate mixture of nucleic acids, including contacting at least one target molecule with a candidate mixture of nucleic acids, in which the nucleic acids have different affinities for the target molecule, and separating in a single step nucleic acids that bind the target molecule with greatest affinity from nucleic acids that bind the target molecule with a lesser affinity and nucleic acids that do not bind the target molecule, thereby identifying the nucleic acid ligand of the target molecule.
Abstract: Disclosed is a method for the detection of virus variations. Disclosed also is a method for the treatment of virus infection in a subject based on the detection of virus variations. Additionally, a kit is provided for the detection of virus variations.
Type:
Grant
Filed:
May 4, 2010
Date of Patent:
May 7, 2013
Assignees:
The Chinese University of HongKong, The Third People's Hospital of Shenzhen
Abstract: The invention concerns a method for the extraction of nucleic acids from biological samples e.g. tissue material or sputum derived from human or animal species and the quantitative detection thereafter of said nucleic acids e.g. in terms of viral load, more specifically RSV viral load detection.
Type:
Grant
Filed:
April 4, 2008
Date of Patent:
April 2, 2013
Assignee:
SpeeDX Pty Ltd.
Inventors:
David Nauwelaers, Lieven Jozef Stuyver, Alison Velyian Todd, Elisa Mokany, Paul Ean Young
Abstract: Compositions and methods are provided for the detection of small RNA target nucleic acids, preferably miRNA target nucleic acids, wherein the compositions and methods provide for sensitive and specific detection of the target nucleic acids. The compositions and methods include using one or more of a first amplification oligomer that is preferably an extender primer, a target capture oligomer that is preferably at least partially double stranded, a promoter primer/provider, a reverse primer that is preferably a universal primer and a detection probe. The compositions and methods are useful for diagnostics, prognostics, monitoring the effectiveness of treatment and/or determining a treatment.
Abstract: System, including methods, apparatus, compositions, and kits, for assays with an emulsion including capsules. A method of performing an assay is provided. In the method, an aqueous phase may be provided. The aqueous phase may include a sample and an effective concentration of one or more skin-forming proteins. An emulsion may be formed. The emulsion may include droplets of the aqueous phase disposed in a nonaqueous continuous phase. The emulsion may be heated to create an interfacial skin between each droplet and the continuous phase, to transform the droplets into capsules. Assay data related to the sample may be collected from the capsules.
Abstract: The present invention provides novel primers and methods for the detection of specific nucleic acid sequences. The primers and methods of the invention are useful in a wide variety of molecular biology applications and are particularly useful in allele specific PCR.
Type:
Grant
Filed:
December 1, 2009
Date of Patent:
March 12, 2013
Assignee:
Life Technologies Corporation
Inventors:
Irina Nazarenko, Ayoub Rashtchian, Joseph Solus, Richard Pires, Marlene Darfler, Gulilat Gebeyehu, Mekbib Astatke
Abstract: Devices, containers, and methods are provided for performing biological analysis in a closed environment. Illustrative biological analysis include nucleic acid amplification and detection and immuno-PCR.
Type:
Grant
Filed:
May 8, 2006
Date of Patent:
March 12, 2013
Assignee:
BioFire Diagnostics, Inc.
Inventors:
Kirk M. Ririe, Michael R. Newswander, Randy P. Rasmussen, Mark Aaron Poritz, Stewart Benjamin Smith, David E. Jones, Gary Clark Kessler
Abstract: The present invention discloses a polymerase chain reaction (PCR) method, a PCR droplet device and a PCR droplet device array. The steps of the method comprise that a liquid comprising an analyzer is dropped on the heating coil disposed on the droplet device to form a droplet, then dropping a hydrophobic solution to prevent the droplet from evaporating. When an electric current or a voltage is supplied through at least one conducting wire to heat the heating coil, the inside of the droplet can generate buoyancy to drive the analyzer to move to the top of the inside of the droplet. Subsequently, the analyzer is moved to a periphery of the inside of the droplet so as to form a thermal cycle. Therefore the template is amplified by recycling the thermal cycle.
Abstract: Mainly provided is a technique for directly identifying the genotype at locus Rf17 based on the specific base sequence data thereof. Also provided is a technique for artificially constructing a fertility-restored line. A method of restoring the fertility of CW-type cytoplasmic male sterile rice by inhibiting or reducing the expression of a gene comprising the base sequence represented by SEQ ID NO:2 in the above-described rice, and a method for determining the presence or absence of gene Rf17, which is a fertility restorer gene for CW-type cytoplasmic male sterility, comprising identifying a single nucleotide polymorphism (SNP) in the base at the 1812 position of the base sequence represented by SEQ ID NO:1 in the rice to be examined.
Abstract: The width of reaction wells and detection wells used for the same sample in a nozzle line direction is made to fall within an area smaller than the pitches of nozzle holding parts, so as to minimize a moving range and enable a pipette action for preventing contamination.
Abstract: The present invention provides novel compositions, kits and methods employing RNA 5? polyphosphatases, RNA 5? monophosphatases, capping enzymes, decapping enzymes, nucleic acid pyrophosphatases and RNA ligases, as well as other enzymes, for selective 5? ligation tagging of desired classes of RNA molecules that differ with respect to particular chemical moieties on their 5? ends. The 5? tagged RNA molecules can be used for synthesis of tagged first-stand cDNA, double-stranded cDNA, and sense or antisense RNA for a variety of uses.
Type:
Grant
Filed:
February 29, 2012
Date of Patent:
November 13, 2012
Assignee:
Epicentre Technologies Corporation
Inventors:
Jerome Jendrisak, Ramesh Vaidyanathan, Gary Dahl
Abstract: The invention relates to nucleic acid and amino acid sequences for sorghum CAD alleles and truncated CAD polypeptides. Sorghum plants having such truncations or combinations thereof, methods of genotyping sorghum plants for CAD truncations, and methods for breeding sorghum plants having truncated CAD sequences or combinations thereof are described.
Abstract: Methods and compositions for performing low background multiplex nucleic acid amplification reactions are provided. Aspects of the invention include contacting a nucleic acid sample with two or more primer pairs for two or more target nucleic acids under template dependent primer extension reaction conditions, e.g., polymerase chain reaction (PCR) conditions. The resultant amplified composition is then contacted with target nucleic acid circularizing reagents, and product circularized target nucleic acids are then selected, e.g., for further amplification. Also provided are systems and kits that find use in practicing embodiments of the inventions.
Type:
Grant
Filed:
September 11, 2007
Date of Patent:
October 23, 2012
Assignee:
The Board of Trustees of the Leland Stanford Junior University
Inventors:
Johan Erik Simon Fredriksson, Carl Oscar Fredrik Dahl
Abstract: This invention relates to methods and apparati for performing multiple simultaneous manipulations of biomolecules in a two-dimensional array, such as a gel, membrane, tissue biopsy, etc. Such manipulations particularly include assays and nucleic acid amplification protocols.
Type:
Grant
Filed:
October 14, 2009
Date of Patent:
October 9, 2012
Assignee:
The United States of America, as represented by the Secretary, Department of Health and Human Services
Inventors:
Michael R. Emmert-Buck, Rodrigo F. Chuaqui, Michael A. Tangrea