Patents Assigned to Applied Biosystems
  • THERMUS BROCKIANUS NUCLEIC ACID POLYMERASES
    Publication number: 20130089865
    Abstract: The invention provides nucleic acids and polypeptides for nucleic acid polymerases from a thermophilic organism, Thermus brockianus. The invention also provides methods for using these nucleic acids and polypeptides.
    Type: Application
    Filed: September 13, 2012
    Publication date: April 11, 2013
    Applicant: Applied Biosystems, LLC
    Inventors: Elena V. BOLCHACOVA, James Rozzelle
  • Methods and compositions for isolating small RNA molecules
    Patent number: 8404439
    Abstract: The present invention concerns the use of methods and compositions for the isolation of small RNA molecules (100 nucleotides or fewer), such as microRNA and siRNA molecules. Such molecules are routinely lost in commonly used isolation procedures and therefore the present invention allows for a much higher level of enrichment or isolation of these small RNA molecules.
    Type: Grant
    Filed: November 2, 2009
    Date of Patent: March 26, 2013
    Assignee: Applied Biosystems, LLC
    Inventor: Richard C. Conrad
  • Methods and systems for using RFID in biological field
    Patent number: 8400304
    Abstract: Biological reagent carrier devices and methods are disclosed, which employ RFID techniques to associate information with biological reagents.
    Type: Grant
    Filed: October 5, 2011
    Date of Patent: March 19, 2013
    Assignee: Applied Biosystems, LLC
    Inventors: Richard D. Morris, Jerome A. Mack
  • nucleic acid polymerases
    Patent number: 8399231
    Abstract: The invention provides novel nucleic acid polymerases from strains GK24 and RQ-1 of Thermus thermophilus, and nucleic acids encoding those polymerases, as well as methods for using the polymerases and nucleic acids.
    Type: Grant
    Filed: October 14, 2010
    Date of Patent: March 19, 2013
    Assignee: Applied Biosystems, LLC
    Inventors: Elena Bolchakova, James Rozzelle
  • Device for the carrying out of chemical or biological reactions
    Patent number: 8389288
    Abstract: The invention relates to a device for the carrying out of chemical or biological reactions with a reaction vessel receiving element for receiving a microtiter plate with several reaction vessels, wherein the reaction vessel receiving element has several recesses arranged in a regular pattern to receive the respective reaction vessels, a heating device for heating the reaction vessel receiving element, and a cooling device for cooling the reaction vessel receiving element. The invention is characterized by the fact that the reaction vessel receiving element is divided into several segments. The individual segments are thermally decoupled from one another, and each segment is assigned a heating device which may be actuated independently of the others. By means of the segmentation of the reaction vessel receiving element, it is possible for zones to be set and held at different temperatures.
    Type: Grant
    Filed: January 18, 2010
    Date of Patent: March 5, 2013
    Assignee: Applied Biosystems, LLC
    Inventors: Wolfgang Heimberg, Thomas Herrmann, Matthias Knulle, Markus Schurf, Tilmann Wagner
  • Non-contact radiant heating and temperature sensing device for a chemical reaction chamber
    Patent number: 8388901
    Abstract: An apparatus and methods are provided for heating and sensing the temperature of a chemical reaction chamber without direct physical contact between a heating device and the reaction chamber, or between a temperature sensor and the reaction chamber. A plurality of chemical reaction chambers can simultaneously or sequentially be heated independently and monitored separately.
    Type: Grant
    Filed: May 24, 2012
    Date of Patent: March 5, 2013
    Assignee: Applied Biosystems, LLC
    Inventors: John S. Shigeura, Janice G. Shigeura
  • Nucleic acid terminators incorporating a cationic moiety and methods for their use
    Patent number: 8389699
    Abstract: Disclosed are methods and kits applicable to sequencing methods, such as Sanger dideoxy sequencing methods. The methods and kits disclosed utilize a cationically charged nucleic acid terminator in combination with a discriminatory polymerase.
    Type: Grant
    Filed: October 15, 2009
    Date of Patent: March 5, 2013
    Assignee: Applied Biosystems, LLC
    Inventors: Barnett Rosenblum, Steven Menchen
  • Phenyl xanthene dyes
    Patent number: 8383841
    Abstract: Fluorescent phenyl xanthene dyes are described that comprise any fluorescein, rhodamine or rhodol comprising a particular C9 phenyl ring. One or both of the ortho groups on the lower C9 phenyl ring is ortho substituted with a group selected from alkyl, heteroalkyl, alkoxy, halo, haloalkyl, amino, mercapto, alkylthio, cyano, isocyano, cyanato, mercaptocyanato, nitroso, nitro, azido, sulfeno, sulfinyl, and sulfino. In one embodiment, halo and/or hydroxy groups are used. Optimal dyes contain a lower C9 phenyl ring in which both ortho groups are the same and the lower ring exhibits some form a symmetry relative to an imaginary axis running from the phenyl rings point of attachment to the remainder of the xanthene dye through a point para to the point of attachment. The phenyl xanthene dyes may be activated. Furthermore, the phenyl xanthene dyes may be conjugated to one or more substances including other dyes.
    Type: Grant
    Filed: January 9, 2009
    Date of Patent: February 26, 2013
    Assignee: Applied Biosystems, LLC
    Inventors: Joe Y. L. Lam, Steven M. Menchen, Ruiming Zou, Scott C. Benson
  • Fluid processing device including size-changing barrier
    Patent number: 8383062
    Abstract: A diagnostic device is provided that includes a plurality of retainment regions interconnected through at least one fluid processing passageway or separated by at least one barrier. A fluid flow modulator can be provided in the fluid processing passageway if a fluid processing passageway is provided. The barrier and/or fluid flow modulator can comprise a polysaccharide, a derivative of a polysaccharide, or a combination thereof. For example, the barrier can comprise a chitosan material.
    Type: Grant
    Filed: November 12, 2010
    Date of Patent: February 26, 2013
    Assignee: Applied Biosystems, LLC
    Inventors: Umberto Ulmanella, Debjyoti Banerjee, Konrad Faulstich, Aldrich Lau, Jun Xie
  • DNA sequencing system
    Patent number: 8384898
    Abstract: An apparatus for detecting labeled beads is provided. The apparatus can include: one or more irradiation sources disposed for irradiating the one or more detection zones with radiation; at least one detector disposed for collecting charges corresponding to light signals emitted from labeled beads in the one or more detection zones, which have been excited by the radiation; and a system coupled to the at least one detector for effecting time delay integration of the charges by accumulating the charges before reading the charges at the output of the at least one detector.
    Type: Grant
    Filed: April 9, 2012
    Date of Patent: February 26, 2013
    Assignee: Applied Biosystems, LLC
    Inventors: Mark Oldham, Eric Nordman, Richard Reel, Janice Shigeura
  • System and method for electroporating a sample
    Patent number: 8383394
    Abstract: A system and method are described for electroporating a sample that utilizes one or more sets of electrodes that are spaced apart in order to hold a surface tension constrained sample between the electrodes. The first electrode is connected to the lower body of the system while the second electrode is connected to the upper body. Both electrodes are connected to a pulse generator. Each electrode has a sample contact surface such that the first electrode and the second electrode may be positioned to hold a surface tension constrained sample between the two sample contact surfaces and the sample may receive a selected electric pulse.
    Type: Grant
    Filed: April 14, 2010
    Date of Patent: February 26, 2013
    Assignee: Applied Biosystems, LLC
    Inventors: Richard Jarvis, Mike Byrom, Dmitriy Ovcharenko
  • DNA sequencing system
    Patent number: 8384899
    Abstract: An apparatus for detecting labeled beads is provided. The apparatus can include: one or more irradiation sources disposed for irradiating the one or more detection zones with radiation; at least one detector disposed for collecting charges corresponding to light signals emitted from labeled beads in the one or more detection zones, which have been excited by the radiation; and a system coupled to the at least one detector for effecting time delay integration of the charges by accumulating the charges before reading the charges at the output of the at least one detector.
    Type: Grant
    Filed: April 9, 2012
    Date of Patent: February 26, 2013
    Assignee: Applied Biosystems, LLC
    Inventors: Mark Oldham, Eric Nordman, Richard Reel, Janice Shigeura
  • Luminescence reference standards
    Patent number: 8373854
    Abstract: The present teachings provide for systems, and components thereof, for detecting and/or analyzing light. These systems can include, among others, optical reference standards utilizing luminophores, such as nanocrystals, for calibrating, validating, and/or monitoring light-detection systems, before, during, and/or after sample analysis.
    Type: Grant
    Filed: June 10, 2010
    Date of Patent: February 12, 2013
    Assignee: Applied Biosystems, LLC
    Inventors: J. Michael Phillips, Kevin S. Bodner, Aldrich N. K. Lau, Steven J. Boege, Mark F. Oldham, Donald R. Sandell, David H. Tracy
  • High speed, high resolution compositions, methods and kits for capillary electrophoresis
    Patent number: 8366900
    Abstract: The invention provides compositions, methods and kits for high speed, high resolution of analytes by capillary electrophoresis starting with uncoated capillaries. The compositions comprise a sieving component, comprising a non-crosslinked acrylamide polymer, and a surface interaction component, comprising at least one uncharged and non-crosslinked water-soluble silica-adsorbing polymer. Methods for employing the novel compositions in capillary electrophoresis are provided. Kits comprising the novel compositions for use in the novel methods are also provided.
    Type: Grant
    Filed: March 16, 2010
    Date of Patent: February 5, 2013
    Assignee: Applied Biosystems, LLC
    Inventors: Karl O. Voss, Aldrich N. K. Lau
  • Recombinant reverse transcriptases
    Patent number: 8361754
    Abstract: The present invention relates to a gene that encodes a hyperactive reverse transcriptase having DNA polymerase activity and substantially reduced RNase H activity, vectors containing the gene and host cells transformed with the invention. The present invention also includes a method of producing the hyperactive reverse transcriptase, producing cDNA from mRNA using the reverse transcriptase of the invention, kits and assay templates made using the hyperactive reverse transcriptase.
    Type: Grant
    Filed: September 28, 2009
    Date of Patent: January 29, 2013
    Assignee: Applied Biosystems, LLC
    Inventors: Liangjing Chen, Robert A. Setterquist, Gary Latham
  • Optical instrument comprising multi-notch beam splitter
    Patent number: 8361785
    Abstract: An instrument is provided that can monitor nucleic acid sequence amplification reactions, for example, PCR amplification of DNA and DNA fragments. The instrument includes a multi-notch filter disposed along one or both of an excitation beam path and an emission beam path. Methods are also provided for monitoring nucleic acid sequence amplifications using an instrument that includes a multi-notch filter disposed along a beam path.
    Type: Grant
    Filed: January 26, 2009
    Date of Patent: January 29, 2013
    Assignee: Applied Biosystems, LLC
    Inventors: Mark F. Oldham, Eugene F. Young
  • Device and method for making discrete volumes of a first fluid in contact with a second fluid, which are immiscible with each other
    Patent number: 8361807
    Abstract: Various embodiments described in the application relate to an apparatus, system, and method for generating, within a conduit, discrete volumes of one or more fluids that are immiscible with a second fluid. The discrete volumes can be used for biochemical or molecular biology procedures involving small volumes, for example, microliter-sized volumes, nanoliter-sized volumes, or smaller. The system can comprise an apparatus comprising at least one conduit operatively connected to one or more pumps for providing discrete volumes separated from one another by a fluid that is immiscible with the fluid(s) of the discrete volumes, for example, aqueous immiscible-fluid-discrete volumes separated by an oil.
    Type: Grant
    Filed: March 22, 2011
    Date of Patent: January 29, 2013
    Assignee: Applied Biosystems, LLC
    Inventors: Willy Wiyatno, Linda Lee, David Cox, Richard Reel, Mark Oldham, Jim Nurse, Douglas Greiner, Dennis Lehto, Janusz Wojtowicz, Sam Woo
  • Optoelectronic separation of biomolecules
    Patent number: 8357282
    Abstract: The present teachings relate to systems and methods for separation of substances such as cells, nucleic acids, and carbon nanotubes. The substances are combined with a separation medium in a liquid sample cavity, for example a microchannel, and transit through the separation by optically activated dielectrophoretic forces. The substances are advantageously labeled and visualized using a microscope and camera.
    Type: Grant
    Filed: November 20, 2009
    Date of Patent: January 22, 2013
    Assignee: Applied Biosystems, LLC
    Inventor: Aldrich N. K. Lau
  • Method and system for genotyping samples in a normalized allelic space
    Patent number: 8359166
    Abstract: Aspects of the present invention describe an apparatus and method for generating genotype calls for a sample. The genotyping initially models allelic signal response into an allelic model having one or more model parameters for an identified one or more sources of systematic variation. The model and parameters are then used to transform the allelic signals to a normalized normalized allelic space that serves to compensate for the one or more sources of systematic variation. By compensating for the systematic variation in this manner, the genotype for the sample is readily determined based upon its relationship to the representation of the allelic signals in normalized allelic space and in accordance with the allelic model.
    Type: Grant
    Filed: August 31, 2009
    Date of Patent: January 22, 2013
    Assignee: Applied Biosystems, LLC
    Inventors: Mark R. Pratt, David P. Holden
  • Polypeptides having nucleic acid binding activity
    Patent number: 8349600
    Abstract: Polypeptides having nucleic acid binding activity are provided. Methods of stabilizing a nucleic acid duplex are provided. Methods of promoting the annealing of complementary nucleic acid strands are provided. Methods of increasing the processivity of a DNA polymerase are provided. Methods of enhancing the activity of a nucleic acid modification enzyme are provided. Fusion proteins are provided. Methods of using fusion proteins are provided. Kits are provided.
    Type: Grant
    Filed: January 6, 2006
    Date of Patent: January 8, 2013
    Assignee: Applied Biosystems, LLC
    Inventors: Patrick K. Martin, David A. Simpson