Patents by Inventor Timothy M. Woudenberg

Timothy M. Woudenberg has filed for patents to protect the following inventions. This listing includes patent applications that are pending as well as patents that have already been granted by the United States Patent and Trademark Office (USPTO).

  • Publication number: 20080299651
    Abstract: A thermal cycler for automatic performance of the polymerase chain reaction is provided. The thermal cycler comprises a heater control that provides close temperature control of the reaction.
    Type: Application
    Filed: December 4, 2007
    Publication date: December 4, 2008
    Applicant: Applera Corporation
    Inventors: John Girdner Atwood, Albert Carmelo Mossa, Lisa May Goven, Fenton Williams, Timothy M. Woudenberg, Marcel Margulies, Robert P. Ragusa, Richard Leath, Clive Miles
  • Publication number: 20080153134
    Abstract: A microplate having a substrate with a hydrophobic surface and a plurality of hydrophilic reaction spots on the hydrophobic surface. Each of the plurality of reaction spots having an amphiphilic polymer and a polynucleotide conjugated to the amphiphilic polymer.
    Type: Application
    Filed: December 22, 2006
    Publication date: June 26, 2008
    Inventors: Willy Wiyatno, Timothy Z. Liu, Timothy M. Woudenberg
  • Patent number: 7381570
    Abstract: The invention is directed to a method and device for simultaneously testing a sample for the presence, absence, and/or amounts of one or more of a plurality of selected analytes. The invention includes, in one aspect, a device for detecting or quantitating a plurality of different analytes in a liquid sample. Each chamber may include an analyte-specific reagent effective to react with a selected analyte that may be present in the sample, and detection means for detecting the signal. Also disclosed are methods utilizing the device.
    Type: Grant
    Filed: February 8, 2006
    Date of Patent: June 3, 2008
    Assignee: Applera Corporation
    Inventors: Timothy M. Woudenberg, Michael Albin, Reid B. Kowallis, Yefim Raysberg, Robert P. Ragusa, Emily S. Winn-Deen
  • Patent number: 7381571
    Abstract: The invention is directed to a method and device for simultaneously testing a sample for the presence, absence, and/or amounts of one or more of a plurality of selected analytes. The invention includes, in one aspect, a device for detecting or quantitating a plurality of different analytes in a liquid sample. Each chamber may include an analyte-specific reagent effective to react with a selected analyte that may be present in the sample, and detection means for detecting the signal. Also disclosed are methods utilizing the device.
    Type: Grant
    Filed: February 24, 2006
    Date of Patent: June 3, 2008
    Assignee: Applera Corporation
    Inventors: Timothy M. Woudenberg, Michael Albin, Reid B. Kowallis, Yefim Raysberg, Robert P. Ragusa, Emily S. Winn-Deen
  • Patent number: 7381569
    Abstract: The invention is directed to a method and device for simultaneously testing a sample for the presence, absence, and/or amounts of one or more of a plurality of selected analytes. The invention includes, in one aspect, a device for detecting or quantitating a plurality of different analytes in a liquid sample. Each chamber may include an analyte-specific reagent effective to react with a selected analyte that may be present in the sample, and detection means for detecting the signal. Also disclosed are methods utilizing the device.
    Type: Grant
    Filed: January 27, 2006
    Date of Patent: June 3, 2008
    Assignee: Applera Corporation
    Inventors: Timothy M. Woudenberg, Michael Albin, Reid B. Kowallis, Yefim Raysberg, Robert P. Raqusa, Emily S. Winn-Deen
  • Patent number: 7357852
    Abstract: Bubble-free electrodes, electrochemical cells including bubble-free electrodes, analytical devices, and methods for preparing and using them are provided. The analytical devices each include at least one bubble-free electrode. Analytical devices that include an electrochemical cell and a sample containment device are also provided, wherein the electrochemical cell includes an anodic reservoir, a cathodic reservoir, an electrical connection between the anodic reservoir and the cathodic reservoir, and a first bubble-free electrode disposed within one of the anodic reservoir and the cathodic reservoir. A second electrode is disposed within the other reservoir and a power source is provided having a positive terminal that is normally in electrical contact with the first electrode, and a negative terminal that is normally in electrical contact with the second electrode.
    Type: Grant
    Filed: November 9, 2004
    Date of Patent: April 15, 2008
    Assignee: Applera Corporation
    Inventors: Timothy M. Woudenberg, Zbigniew T. Bryning, Reid B. Kowallis
  • Publication number: 20080066549
    Abstract: An embodiment relates generally to a method for analysis of a nucleic acid. The method includes providing for a resonant structure configured to couple with one or more fluorescently labeled nucleic acids and directing an excitation light from a source on the resonant structure. The method also includes generating plasmons on the surface of the resonant structure where the analyte is fixed at a point of energy concentration of the resonant structure.
    Type: Application
    Filed: September 18, 2007
    Publication date: March 20, 2008
    Inventors: Mark F. OLDHAM, Eric S. Nordman, Charles R. Connell, Timothy M. Woudenberg
  • Patent number: 7244622
    Abstract: The invention is directed to a method and device for simultaneously testing a sample for the presence, absence, and/or amounts of one or more of a plurality of selected analytes. The invention includes, in one aspect, a device for detecting or quantitating a plurality of different analytes in a liquid sample. Each chamber may include an analyte-specific reagent effective to react with a selected analyte that may be present in the sample, and detection means for detecting the signal. Also disclosed are methods utilizing the device.
    Type: Grant
    Filed: January 5, 2005
    Date of Patent: July 17, 2007
    Assignee: Applera Corporation
    Inventors: Timothy M. Woudenberg, Michael Albin, Reid B. Kowallis, Yefim Raysberg, Robert P. Ragusa, Emily S. Winn-Deen
  • Patent number: 7238517
    Abstract: An instrument for performing highly accurate PCR employing a sample block in microtiter tray format. The sample block has local balance and local symmetry. A three zone film heater controlled by a computer and ramp cooling solenoid valves also controlled by the computer for gating coolant flow through the block controls the block temperature. Constant bias cooling is used for small changes. Sample temperature is calculated instead of measured. A platen deforms plastic caps to apply a minimum acceptable threshold force for seating the tubes and thermally isolates them. A cover isolates the block. The control software includes diagnostics. An install program tests and characterizes the instrument. A new user interface is used. Disposable, multipiece plastic microtiter trays to give individual freedom to sample tubes are taught.
    Type: Grant
    Filed: October 22, 2003
    Date of Patent: July 3, 2007
    Assignee: Applera Corporation
    Inventors: John Girdner Atwood, Albert Carmelo Mossa, Lisa May Goven, Fenton Williams, Timothy M. Woudenberg, Marcel Margulies, Robert P. Ragusa, Richard Leath, Clive Miles
  • Patent number: 7211443
    Abstract: The invention is directed to a method and device for simultaneously testing a sample for the presence, absence, and/or amounts of one or more a plurality of selected analytes. The invention includes, in one aspect, a device for detecting or quantitating a plurality of different analytes in a liquid sample. The device includes a substrate which defines a sample-distribution network having (i) a sample inlet, (ii) one or more detection chambers, and (iii) channel means providing a dead-end fluid connection between each of the chambers and the inlet. Each chamber may include an analyte-specific reagent effective to react with a selected analyte that may be present in the sample, and detection means for detecting the signal. Also disclosed are methods utilizing the device.
    Type: Grant
    Filed: February 24, 2003
    Date of Patent: May 1, 2007
    Assignee: Applera Corporation
    Inventors: Timothy M. Woudenberg, Michael Albin, Reid B. Kowalis, Yefim Raysberg, Robert P. Ragusa, Emily S. Winn-Deen
  • Patent number: 7198900
    Abstract: The present invention generally relates to the detection of analytes, particularly biomolecules in samples. The invention also relates to compositions, methods, and kits for detecting the presence of analytes, typically in multiplex detection formats. The invention also relates to methods for determining the presence of at least one analyte in a sample, the methods employing employ single molecule detection techniques to individually detect at least one molecular complex or at least part of a molecular complex.
    Type: Grant
    Filed: August 29, 2003
    Date of Patent: April 3, 2007
    Assignee: Applera Corporation
    Inventors: Timothy M. Woudenberg, Dar Bahatt, Muhammad A. Sharaf, Timothy Z. Liu, Serguei Ermakov, Charles R. Connell, Jens J. Hyldig-Nielsen
  • Patent number: 6890409
    Abstract: Bubble-free electrodes, electrochemical cells including bubble-free electrodes, analytical devices, and methods for preparing and using them are provided. The analytical devices each include at least one bubble-free electrode. Analytical devices that include an electrochemical cell and a sample containment device are also provided, wherein the electrochemical cell includes an anodic reservoir, a cathodic reservoir, an electrical connection between the anodic reservoir and the cathodic reservoir, and a first bubble-free electrode disposed within one of the anodic reservoir and the cathodic reservoir. A second electrode is disposed within the other reservoir and a power source is provided having a positive terminal that is normally in electrical contact with the first electrode, and a negative terminal that is normally in electrical contact with the second electrode.
    Type: Grant
    Filed: August 24, 2001
    Date of Patent: May 10, 2005
    Assignee: Applera Corporation
    Inventors: Timothy M. Woudenberg, Zbigniew T. Bryning, Reid B. Kowallis
  • Publication number: 20040248146
    Abstract: An instrument for performing highly accurate PCR employing a sample block in microtiter tray format. The sample block has local balance and local symmetry. A three zone film heater controlled by a computer and ramp cooling solenoid valves also controlled by the computer for gating coolant flow through the block controls the block temperature. Constant bias cooling is used for small changes. Sample temperature is calculated instead of measured. A platen deforms plastic caps to apply a minimum acceptable threshold force for seating the tubes and thermally isolates them. A cover isolates the block. The control software includes diagnostics. An install program tests and characterizes the instrument. A new user interface is used. Disposable, multipiece plastic microtiter trays to give individual freedom to sample tubes are taught.
    Type: Application
    Filed: October 22, 2003
    Publication date: December 9, 2004
    Applicant: Applera Corporation
    Inventors: John Girdner Atwood, Albert Carmelo Mossa, Lisa May Goven, Fenton Williams Brookfield, Marcel Margulies, Robert P. Ragusa, Richard Leath, Timothy M. Woudenberg, Clive Miles
  • Publication number: 20040178074
    Abstract: The present invention provides, in one aspect, an apparatus or electrophoretic separation of analytes. In one aspect, the apparatus comprises a disc-shaped substrate defining (1) a central reservoir region, (2) a plurality of electrophoretic channels in fluid communication with, and emanating substantially radially from, the central reservoir region, the channels being coplanar with each other, and each channel having (i) a proximal end which is linked to the reservoir region, and (ii) a distal end, and preferably (3) for each channel, at least one chamber, and preferably three chambers, linked by a passageway in fluid communication with the distal end of that channel.
    Type: Application
    Filed: December 8, 2003
    Publication date: September 16, 2004
    Applicant: Applera Corporation
    Inventors: Timothy M. Woudenberg, Reid B. Kowallis
  • Publication number: 20040086927
    Abstract: An instrument for performing highly accurate PCR employing a sample block in microtiter tray format. The sample block has local balance and local symmetry. A three zone film heater controlled by a computer and ramp cooling solenoid valves also controlled by the computer for gating coolant flow through the block controls the block temperature. Constant bias cooling is used for small changes. Sample temperature is calculated instead of measured. A platen deforms plastic caps to apply a minimum acceptable threshold force for seating the tubes and thermally isolates them. A cover isolates the block. The control software includes diagnostics. An install program tests and characterizes the instrument. A new user interface is used. Disposable, multipiece plastic microtiter trays to give individual freedom to sample tubes are taught.
    Type: Application
    Filed: October 22, 2003
    Publication date: May 6, 2004
    Applicant: Applera Corporation, a DE corporation
    Inventors: John Girdner Atwood, Albert Carmelo Mossa, Lisa May Goven, Fenton Williams, Timothy M. Woudenberg, Marcel Margulies, Robert P. Ragusa, Richard Leath, Clive Miles
  • Patent number: 6660147
    Abstract: The present invention provides, in one aspect, an apparatus for electrophoretic separation of analytes. In one aspect, the apparatus comprises a disc-shaped substrate defining (1) a central reservoir region, (2) a plurality of electrophoretic channels in fluid communication with, and emanating substantially radially from, the central reservoir region, the channels being coplanar with each other, and each channel having (i) a proximal end which is linked to the reservoir region, and (ii) a distal end, and preferably (3) for each channel, at least one chamber, and preferably three chambers, linked by a passageway in fluid communication with the distal end of that channel.
    Type: Grant
    Filed: July 14, 2000
    Date of Patent: December 9, 2003
    Assignee: Applera Corporation
    Inventors: Timothy M. Woudenberg, Reid B. Kowallis
  • Publication number: 20030075445
    Abstract: Bubble-free electrodes, electrochemical cells including bubble-free electrodes, analytical devices, and methods for preparing and using them are provided. The analytical devices each include at least one bubble-free electrode. Analytical devices that include an electrochemical cell and a sample containment device are also provided, wherein the electrochemical cell includes an anodic reservoir, a cathodic reservoir, an electrical connection between the anodic reservoir and the cathodic reservoir, and a first bubble-free electrode disposed within one of the anodic reservoir and the cathodic reservoir. A second electrode is disposed within the other reservoir and a power source is provided having a positive terminal that is normally in electrical contact with the first electrode, and a negative terminal that is normally in electrical contact with the second electrode.
    Type: Application
    Filed: August 24, 2001
    Publication date: April 24, 2003
    Inventors: Timothy M. Woudenberg, Zbigniew T. Bryning, Reid B. Kowallis
  • Publication number: 20020072112
    Abstract: An instrument for performing highly accurate PCR employing a sample block in microtiter tray format. The sample block has local balance and local symmetry. A three zone film heater controlled by a computer and ramp cooling solenoid valves also controlled by the computer for gating coolant flow through the block controls the block temperature. Constant bias cooling is used for small changes. Sample temperature is calculated instead of measured. A platen deforms plastic caps to apply a minimum acceptable threshold force for seating the tubes and thermally isolates them. A cover isolates the block. The control software includes diagnostics. An install program tests and characterizes the instrument. A new user interface is used. Disposable, multipiece plastic microtiter trays to give individual freedom to sample tubes are taught.
    Type: Application
    Filed: January 11, 2000
    Publication date: June 13, 2002
    Inventors: JOHN GIRDNER ATWOOD, ALBERT CARMELO MOSSA, LISA MAY GOVEN, FENTON WILLIAMS, TIMOTHY M. WOUDENBERG, MARCEL MARGOULIES, ROBERT P. RAGUSA, RICHARD LEATH, CLIVE MILES
  • Patent number: 6033880
    Abstract: Apparatus and method for performing a nucleic acid amplification reaction and preferably a polymerase chain reaction (PCR) in a reaction mixture in at least one capillary tube. Several different embodiments are disclosed. One embodiment cycles a sample through a capillary tube loop passing through two thermostatted fluid baths. Another embodiment has the capillary tube routed alternatingly between two heat exchangers to that the sample makes only one pass through the tube. Other embodiments maintain the heat exchangers stationary and translate the samples between them. Still further embodiments maintain the samples stationary and either automatically translate or rotate the heat exchangers past the samples contained within the capillary tubes to perform the thermal cycles necessary for the amplification reaction.
    Type: Grant
    Filed: February 23, 1998
    Date of Patent: March 7, 2000
    Assignee: The Perkin-Elmer Corporation
    Inventors: Lawrence A. Haff, Enrico Picozza, Will Bloch, Robert Ragusa, Joseph DiCesare, David Tracy, Paul Saviano, Timothy M. Woudenberg, Richard W. Noreiks
  • Patent number: 6015674
    Abstract: An apparatus is provided which includes a sample holder for holding a reaction chamber which includes an optical interface, a fiber optic cable for delivering an excitation beam to a sample housed within the reaction chamber and for receiving light emitted by the sample, and a lens co-axially disposed with the fiber optic cable and positioned outside the reaction chamber for focusing the excitation beam through the optical interface and within a volume of the sample and for collecting and transmitting to the fiber optic cable light emitted within the volume of the sample.
    Type: Grant
    Filed: March 20, 1998
    Date of Patent: January 18, 2000
    Assignee: Perkin-Elmer Corporation Applied Biosystems Division
    Inventors: Timothy M. Woudenberg, Kevin S. Bodner, Charles R. Connell, John Shigeura, David H. Tracy, Eugene F. Young