Patents by Inventor Austin B. Tomaney

Austin B. Tomaney 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).

  • Patent number: 10023911
    Abstract: Computer implemented methods, and systems performing such methods for processing signal data from analytical operations and systems, and particularly in processing signal data from sequence-by-incorporation processes to identify nucleotide sequences of template nucleic acids and larger nucleic acid molecules, e.g., genomes or fragments thereof.
    Type: Grant
    Filed: October 13, 2015
    Date of Patent: July 17, 2018
    Assignee: Pacific Biosciences of California, Inc.
    Inventors: Austin B. Tomaney, Kenneth Mark Maxham, David Holden, Kevin Hester, Devon Murphy, Patrick Marks
  • Publication number: 20170276609
    Abstract: A system and method for characterizing contributions to signal noise associated with charge-coupled devices adapted for use in biological analysis. Dark current contribution, readout offset contribution, photo response non-uniformity, and spurious charge contribution can be determined by the methods of the present teachings and used for signal correction by systems of the present teachings.
    Type: Application
    Filed: April 6, 2017
    Publication date: September 28, 2017
    Applicant: APPLIED BIOSYSTEMS, LLC
    Inventors: Austin B. TOMANEY, Mark F. OLDHAM
  • Publication number: 20160153038
    Abstract: Methods, compositions, and systems are provided for characterization of modified nucleic acids. In certain preferred embodiments, single molecule sequencing methods are provided for identification of modified nucleotides within nucleic acid sequences. Modifications detectable by the methods provided herein include chemically modified bases, enzymatically modified bases, abasic sites, non-natural bases, secondary structures, and agents bound to a template nucleic acid.
    Type: Application
    Filed: September 23, 2015
    Publication date: June 2, 2016
    Inventors: Benjamin Flusberg, Jonas Korlach, Jeffrey Wegener, Tyson A. Clark, Igor Drasko Vilfan, Andrey Kislyuk, Stephen Turner, Jon Sorenson, Kevin Travers, Cheryl Heiner, Austin B. Tomaney, Patrick Marks, Jessica Lee, Lei Jia, Dale Webster, John Lyle, Jeremiah Hanes
  • Publication number: 20160097093
    Abstract: Computer implemented methods, and systems performing such methods for processing signal data from analytical operations and systems, and particularly in processing signal data from sequence-by-incorporation processes to identify nucleotide sequences of template nucleic acids and larger nucleic acid molecules, e.g.
    Type: Application
    Filed: October 13, 2015
    Publication date: April 7, 2016
    Inventors: Austin B. Tomaney, Kenneth Mark Maxham, David Holden, Kevin Hester, Devon Murphy, Patrick Marks
  • Patent number: 9175338
    Abstract: Methods, compositions, and systems are provided for characterization of modified nucleic acids. In certain preferred embodiments, single molecule sequencing methods are provided for identification of modified nucleotides within nucleic acid sequences. Modifications detectable by the methods provided herein include chemically modified bases, enzymatically modified bases, abasic sites, non-natural bases, secondary structures, and agents bound to a template nucleic acid.
    Type: Grant
    Filed: November 12, 2010
    Date of Patent: November 3, 2015
    Assignee: Pacific Biosciences of California, Inc.
    Inventors: Benjamin Flusberg, Jonas Korlach, Jeffrey Wegener, Tyson A. Clark, Igor Vilfan, Andrey Kislyuk, Stephen Turner, Jon Sorenson, Kevin Travers, Cheryl Heiner, Austin B. Tomaney, Patrick Marks, Jessica Lee, Lei Jia, Dale Webster, John Lyle, Jeremiah Hanes, Joseph Puglisi
  • Patent number: 9175343
    Abstract: Computer implemented methods, and systems performing such methods for processing signal data from analytical operations and systems, and particularly in processing signal data from sequence-by-incorporation processes to identify nucleotide sequences of template nucleic acids and larger nucleic acid molecules, e.g., genomes or fragments thereof.
    Type: Grant
    Filed: March 6, 2014
    Date of Patent: November 3, 2015
    Assignee: Pacific Biosciences of California, Inc.
    Inventors: Austin B. Tomaney, Kenneth Mark Maxham, David Holden, Kevin Hester, Devon Murphy, Patrick Marks
  • Publication number: 20150080270
    Abstract: A system and method for characterizing contributions to signal noise associated with charge-coupled devices adapted for use in biological analysis. Dark current contribution, readout offset contribution, photo response non-uniformity, and spurious charge contribution can be determined by the methods of the present teachings and used for signal correction by systems of the present teachings.
    Type: Application
    Filed: August 22, 2014
    Publication date: March 19, 2015
    Inventors: Austin B. TOMANEY, Mark OLDHAM
  • Publication number: 20140303016
    Abstract: Computer implemented methods, and systems performing such methods for processing signal data from analytical operations and systems, and particularly in processing signal data from sequence-by-incorporation processes to identify nucleotide sequences of template nucleic acids and larger nucleic acid molecules, e.g., genomes or fragments thereof.
    Type: Application
    Filed: March 6, 2014
    Publication date: October 9, 2014
    Applicant: PACIFIC BIOSCIENCES OF CALIFORNIA, INC.
    Inventors: Austin B. Tomaney, Kenneth Mark Maxham, David Holden, Kevin Hester, Devon Murphy, Patrick Marks
  • Publication number: 20120319008
    Abstract: A system and method for characterizing contributions to signal noise associated with charge-coupled devices adapted for use in biological analysis. Dark current contribution, readout offset contribution, photo response non-uniformity, and spurious charge contribution can be determined by the methods of the present teachings and used for signal correction by systems of the present teachings.
    Type: Application
    Filed: August 24, 2012
    Publication date: December 20, 2012
    Applicant: LIFE TECHNOLOGIES CORPORATION
    Inventors: Austin B. Tomaney, Mark F. Oldham
  • Patent number: 8274650
    Abstract: A system and method for characterizing contributions to signal noise associated with charge-coupled devices adapted for use in biological analysis. Dark current contribution, readout offset contribution, photo response non-uniformity, and spurious charge contribution can be determined by the methods of the present teachings and used for signal correction by systems of the present teachings.
    Type: Grant
    Filed: May 6, 2010
    Date of Patent: September 25, 2012
    Assignee: Applied Biosystems, LLC
    Inventors: Austin B. Tomaney, Mark F. Oldham
  • Publication number: 20120214246
    Abstract: A system and method for measuring signals having a wide range of intensity components using detectors adapted for use in biological analysis devices. In certain biological analysis applications, signals emitted by a sample may have intensity components that vary over several orders of magnitude. Measurement of such a signal may yield an acceptable quality for one intensity component at the expense of another component. For example, a detector configured to measure a relatively weak intensity component may cause it to overflow when subjected to a relatively strong intensity component. The detector can be adapted to be operated at different configurations to allow measurements of different components of the signal, and the results can be combined to yield an accurate representation of the signal.
    Type: Application
    Filed: January 30, 2012
    Publication date: August 23, 2012
    Applicant: LIFE TECHNOLOGIES CORPORATION
    Inventors: Mark F. Oldham, Austin B. Tomaney
  • Patent number: 8182993
    Abstract: Computer implemented methods, and systems performing such methods for processing signal data from analytical operations and systems, and particularly in processing signal data from sequence-by-incorporation processes to identify nucleotide sequences of template nucleic acids and larger nucleic acid molecules, e.g., genomes or fragments thereof.
    Type: Grant
    Filed: June 5, 2008
    Date of Patent: May 22, 2012
    Assignee: Pacific Biosciences of California, Inc.
    Inventors: Austin B. Tomaney, Kenneth Mark Maxham, David Holden, Kevin Hester, Devon Murphy, Patrick Marks
  • Publication number: 20120015825
    Abstract: Methods and systems for obtaining and processing optical signal data from analytical reactions, and in processing signal data from arrays of sequence-by-incorporation processes to identify nucleotide sequences of template nucleic acids and larger nucleic acid molecules, e.g., genomes or fragments thereof are described. Defining and applying a 2-dimensional software mask allows for obtaining signal data from arrays with higher signal to noise than where the mask is not applied.
    Type: Application
    Filed: June 30, 2011
    Publication date: January 19, 2012
    Applicant: Pacific Biosciences of California, Inc.
    Inventors: Cheng Frank Zhong, Austin B. Tomaney, Patrick Marks, Stuart George Johnson, James N. LaBrenz, Paul Lundquist
  • Publication number: 20110192957
    Abstract: A system and method for measuring signals having a wide range of intensity components using detectors adapted for use in biological analysis devices. In certain biological analysis applications, signals emitted by a sample may have intensity components that vary over several orders of magnitude. Measurement of such a signal may yield an acceptable quality for one intensity component at the expense of another component. For example, a detector configured to measure a relatively weak intensity component may cause it to overflow when subjected to a relatively strong intensity component. The detector can be adapted to be operated at different configurations to allow measurements of different components of the signal, and the results can be combined to yield an accurate representation of the signal.
    Type: Application
    Filed: September 27, 2010
    Publication date: August 11, 2011
    Applicant: LIFE TECHNOLOGIES CORPORATION
    Inventors: Mark F. Oldham, Austin B. Tomaney
  • Publication number: 20110183320
    Abstract: Methods, compositions, and systems are provided for characterization of modified nucleic acids. In certain preferred embodiments, single molecule sequencing methods are provided for identification of modified nucleotides within nucleic acid sequences. Modifications detectable by the methods provided herein include chemically modified bases, enzymatically modified bases, abasic sites, non-natural bases, secondary structures, and agents bound to a template nucleic acid.
    Type: Application
    Filed: November 12, 2010
    Publication date: July 28, 2011
    Applicant: Pacific Biosciences of California, Inc.
    Inventors: Benjamin Flusberg, Jonas Korlach, Jeffrey Wegener, Tyson A. Clark, Igor Vilfan, Andrey Kislyuk, Stephen Turner, Jon Sorenson, Kevin Travers, Cheryl Heiner, Austin B. Tomaney, Patrick Marks, Jessica Lee, Lei Jia, Dale Webster, John Lyle, Jeremiah Hanes, Joseph Puglisi
  • Publication number: 20110079705
    Abstract: A system and method for characterizing contributions to signal noise associated with charge-coupled devices adapted for use in biological analysis. Dark current contribution, readout offset contribution, photo response non-uniformity, and spurious charge contribution can be determined by the methods of the present teachings and used for signal correction by systems of the present teachings.
    Type: Application
    Filed: May 6, 2010
    Publication date: April 7, 2011
    Applicant: LIFE TECHNOLOGIES CORPORATION
    Inventors: Austin B. Tomaney, Mark F. Oldham
  • Patent number: 7715004
    Abstract: A system and method for characterizing contributions to signal noise associated with charge-coupled devices adapted for use in biological analysis. Dark current contribution, readout offset contribution, photo response non-uniformity, and spurious charge contribution can be determined by the methods of the present teachings and used for signal correction by systems of the present teachings.
    Type: Grant
    Filed: July 28, 2008
    Date of Patent: May 11, 2010
    Assignee: Applied Biosystems, LLC
    Inventors: Austin B. Tomaney, Mark F. Oldham
  • Publication number: 20100113285
    Abstract: A method of using a standard to correct for variability in sample handling, can comprise (a) adding a template of known concentration to an assay comprising a sample; (b) preamplifying the assay; (c) amplifying the assay; (d) collecting data during the amplifying; and (e) correcting the data using a comparison of data collected from the template to data collected from the sample.
    Type: Application
    Filed: April 28, 2009
    Publication date: May 6, 2010
    Applicant: Life Technologies Corporation
    Inventors: H. Pin Kao, Ian A. Harding, Kathleen C. Hayashibara, Achim Karger, Fiona C. Laird Hyland, Mark F. Oldham, Omead Ostadan, Mark R. Pratt, Junko F. Stevens, Austin B. Tomaney, Greg Young
  • Publication number: 20090024331
    Abstract: Computer implemented methods, and systems performing such methods for processing signal data from analytical operations and systems, and particularly in processing signal data from sequence-by-incorporation processes to identify nucleotide sequences of template nucleic acids and larger nucleic acid molecules, e.g., genomes or fragments thereof.
    Type: Application
    Filed: June 5, 2008
    Publication date: January 22, 2009
    Applicant: Pacific Biosciences of California, Inc.
    Inventors: Austin B. Tomaney, Kenneth Mark Maxham, David Holden, Kevin Hester, Devon Murphy, Patrick Marks
  • Publication number: 20080290283
    Abstract: A system and method for characterizing contributions to signal noise associated with charge-coupled devices adapted for use in biological analysis. Dark current contribution, readout offset contribution, photo response non-uniformity, and spurious charge contribution can be determined by the methods of the present teachings and used for signal correction by systems of the present teachings.
    Type: Application
    Filed: July 28, 2008
    Publication date: November 27, 2008
    Applicant: Applera Corporation
    Inventors: Austin B. Tomaney, Mark F. Oldham