Patents by Inventor Daniel Burgess

Daniel Burgess 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: 11773388
    Abstract: The present disclosure provides a method for enrichment of at least one target nucleic acid in a library of nucleic acids. A first oligonucleotide is hybridized to a target nucleic acid in library of nucleic acids having first and second adapters. The hybridized first oligonucleotide is extended with a first polymerase, thereby producing a first primer extension complex including the target nucleic acid and the extended first oligonucleotide. The first primer extension complex is captured, enriched relative to the library of nucleic acids, and a second oligonucleotide is hybridized to the target nucleic acid. The hybridized second oligonucleotide is extended with a second polymerase, thereby producing a second primer extension complex including the target nucleic acid and the extended second oligonucleotide, and further liberating the extended first oligonucleotide from the first primer extension complex.
    Type: Grant
    Filed: June 22, 2020
    Date of Patent: October 3, 2023
    Assignees: Roche Sequencing Solutions, Inc., Kapa Biosystems, Inc.
    Inventors: Daniel Burgess, Brian Christopher Godwin, Alexander Lovejoy, Bronwen Miller, Jo-Anne Elizabeth Penkler, Joseph Platzer
  • Publication number: 20230250476
    Abstract: In one aspect of the present disclosure is a targeted sequencing workflow where an input sample comprising a sufficient quantity of genomic material is provided such minimal or no amplification cycles are utilized prior to sequencing.
    Type: Application
    Filed: April 6, 2023
    Publication date: August 10, 2023
    Inventors: Nelson R. Alexander, Daniel Burgess, Heidi J. Rosenbaum, Stacey Stanislaw
  • Patent number: 11649492
    Abstract: In one aspect of the present disclosure is a targeted sequencing workflow where an input sample comprising a sufficient quantity of genomic material is provided such minimal or no amplification cycles are utilized prior to sequencing.
    Type: Grant
    Filed: July 13, 2018
    Date of Patent: May 16, 2023
    Assignees: Roche Sequencing Solutions, Inc., Ventana Medical Systems, Inc.
    Inventors: Nelson R Alexander, Daniel Burgess, Heidi J Rosenbaum, Stacey Stanislaw
  • Publication number: 20230039014
    Abstract: The present disclosure is directed to automated systems including a microfluidic chip having one or more independently operable processing conduits. In some embodiments, the automated systems are suitable for use in sample cleanup and/or target enrichment processes, such as sample cleanup and/or target enrichment processes conducted prior to sequencing.
    Type: Application
    Filed: January 21, 2021
    Publication date: February 9, 2023
    Inventors: Yann Astier, Daniel Burgess, Ulrich Schlecht, Jaeyoung Yang
  • Patent number: 11155853
    Abstract: The present disclosure provides a system and method for depleting target nucleic acids from a nucleic acid sample. In one aspect, a kit according to the present disclosure includes a plurality of DNA probes. Each of the DNA probes is hybridizable to form a heteroduplex with at least one of a plurality of target RNA transcripts in a nucleic acid sample. The number of unique target RNA transcripts hybridized by the plurality of DNA probes is at least three. The kit further includes an enzyme having RNA-DNA hybrid ribonucleotidohydrolase activity, where degrades at least the RNA portion of the heteroduplex.
    Type: Grant
    Filed: October 3, 2019
    Date of Patent: October 26, 2021
    Assignee: Roche Sequencing Solutions, Inc.
    Inventors: Venera Bouriakov, Daniel Burgess
  • Publication number: 20200392483
    Abstract: The present disclosure provides a method for enrichment of at least one target nucleic acid in a library of nucleic acids. A first oligonucleotide is hybridized to a target nucleic acid in library of nucleic acids having first and second adapters. The hybridized first oligonucleotide is extended with a first polymerase, thereby producing a first primer extension complex including the target nucleic acid and the extended first oligonucleotide. The first primer extension complex is captured, enriched relative to the library of nucleic acids, and a second oligonucleotide is hybridized to the target nucleic acid. The hybridized second oligonucleotide is extended with a second polymerase, thereby producing a second primer extension complex including the target nucleic acid and the extended second oligonucleotide, and further liberating the extended first oligonucleotide from the first primer extension complex.
    Type: Application
    Filed: June 22, 2020
    Publication date: December 17, 2020
    Inventors: Daniel Burgess, Brian Christopher Godwin, Alexander Lovejoy, Bronwen Miller, Jo-Anne Elizabeth Penkler, Joseph Platzer
  • Patent number: 10820959
    Abstract: A system for charging an onboard battery of a medical device prior to use of the medical device may include a package configured to accommodate the medical device therein. A power source may be disposed relative to the package and may be capable of charging the onboard battery of the medical device prior to use of the medical device. The system may be capable of being subjected to a sterilization process with the power source disposed within the second cavity. In some instances, the power source is uncharged during sterilization. In some cases, the power source is encapsulated or otherwise sealed during sterilization.
    Type: Grant
    Filed: November 15, 2019
    Date of Patent: November 3, 2020
    Assignee: BOSTON SCIENTIFIC SCIMED, INC
    Inventors: Jan Weber, Daniel Burgess, Kathryn A. Johnson, James M. Peck
  • Publication number: 20200078126
    Abstract: A system for charging an onboard battery of a medical device prior to use of the medical device may include a package configured to accommodate the medical device therein. A power source may be disposed relative to the package and may be capable of charging the onboard battery of the medical device prior to use of the medical device. The system may be capable of being subjected to a sterilization process with the power source disposed within the second cavity. In some instances, the power source is uncharged during sterilization. In some cases, the power source is encapsulated or otherwise sealed during sterilization.
    Type: Application
    Filed: November 15, 2019
    Publication date: March 12, 2020
    Applicant: BOSTON SCIENTIFIC SCIMED, INC.
    Inventors: JAN WEBER, DANIEL BURGESS, KATHRYN A. JOHNSON, JAMES M. PECK
  • Publication number: 20200032244
    Abstract: The present disclosure provides a method for enrichment of at least one target nucleic acid in a library of nucleic acids. A first oligonucleotide is hybridized to a target nucleic acid in library of nucleic acids having first and second adapters. The hybridized first oligonucleotide is extended with a first polymerase, thereby producing a first primer extension complex including the target nucleic acid and the extended first oligonucleotide. The first primer extension complex is captured, enriched relative to the library of nucleic acids, and a second oligonucleotide is hybridized to the target nucleic acid. The hybridized second oligonucleotide is extended with a second polymerase, thereby producing a second primer extension complex including the target nucleic acid and the extended second oligonucleotide, and further liberating the extended first oligonucleotide from the first primer extension complex.
    Type: Application
    Filed: August 15, 2019
    Publication date: January 30, 2020
    Inventors: Daniel Burgess, Brian Christopher Godwin, Alexander Lovejoy, Bronwen Miller, Jo-Anne Elizabeth Penkler, Joseph Platzer, Martin Ranik
  • Publication number: 20200024646
    Abstract: The present disclosure provides a system and method for depleting target nucleic acids from a nucleic acid sample. In one aspect, a kit according to the present disclosure includes a plurality of DNA probes. Each of the DNA probes is hybridizable to form a heteroduplex with at least one of a plurality of target RNA transcripts in a nucleic acid sample. The number of unique target RNA transcripts hybridized by the plurality of DNA probes is at least three. The kit further includes an enzyme having RNA-DNA hybrid ribonucleotidohydrolase activity, where degrades at least the RNA portion of the heteroduplex.
    Type: Application
    Filed: October 3, 2019
    Publication date: January 23, 2020
    Inventors: Venera Bouriakov, Daniel Burgess
  • Patent number: 10478259
    Abstract: A system for charging an onboard battery of a medical device prior to use of the medical device may include a package configured to accommodate the medical device therein. A power source may be disposed relative to the package and may be capable of charging the onboard battery of the medical device prior to use of the medical device. The system may be capable of being subjected to a sterilization process with the power source disposed within the second cavity. In some instances, the power source is uncharged during sterilization. In some cases, the power source is encapsulated or otherwise sealed during sterilization.
    Type: Grant
    Filed: June 9, 2017
    Date of Patent: November 19, 2019
    Assignee: BOSTON SCIENTIFIC SCIMED, INC.
    Inventors: Jan Weber, Daniel Burgess, Kathryn A. Johnson, James M. Peck
  • Patent number: 10472666
    Abstract: The present disclosure provides a system and method for depleting target nucleic acids from a nucleic acid sample. In one aspect, a kit according to the present disclosure includes a plurality of DNA probes. Each of the DNA probes is hybridizable to form a heteroduplex with at least one of a plurality of target RNA transcripts in a nucleic acid sample. The number of unique target RNA transcripts hybridized by the plurality of DNA probes is at least three. The kit further includes an enzyme having RNA-DNA hybrid ribonucleotidohydrolase activity, where degrades at least the RNA portion of the heteroduplex.
    Type: Grant
    Filed: February 3, 2017
    Date of Patent: November 12, 2019
    Assignee: Roche Sequencing Solutions, Inc.
    Inventors: Venera Bouriakov, Daniel Burgess
  • Publication number: 20190284602
    Abstract: The present disclosure provides a system and method for depleting target nucleic acids from a nucleic acid sample. In one aspect, a kit according to the present disclosure includes a plurality of DNA probes. Each of the DNA probes is hybridizable to form a heteroduplex with at least one of a plurality of target RNA transcripts in a nucleic acid sample. The number of unique target RNA transcripts hybridized by the plurality of DNA probes is at least three. The kit further includes an enzyme having RNA-DNA hybrid ribonucleotidohydrolase activity, where degrades at least the RNA portion of the heteroduplex.
    Type: Application
    Filed: February 3, 2017
    Publication date: September 19, 2019
    Inventors: Venera Bouriakov, Daniel Burgess
  • Publication number: 20180320229
    Abstract: In one aspect of the present disclosure is a targeted sequencing workflow where an input sample comprising a sufficient quantity of genomic material is provided such minimal or no amplification cycles are utilized prior to sequencing.
    Type: Application
    Filed: July 13, 2018
    Publication date: November 8, 2018
    Inventors: Nelson R. Alexander, Daniel Burgess, Heidi J. Rosenbaum, Stacey Stanislaw
  • Publication number: 20180223331
    Abstract: The present disclosure provides a system and method for depleting target nucleic acids from a nucleic acid sample. In one aspect, a kit according to the present disclosure includes a plurality of DNA probes. Each of the DNA probes is hybridizable to form a heteroduplex with at least one of a plurality of target RNA transcripts in a nucleic acid sample. The number of unique target RNA transcripts hybridized by the plurality of DNA probes is at least three. The kit further includes an enzyme having RNA-DNA hybrid ribonucleotidohydrolase activity, where degrades at least the RNA portion of the heteroduplex.
    Type: Application
    Filed: February 3, 2017
    Publication date: August 9, 2018
    Inventors: Venera Bouriakov, Daniel Burgess
  • Publication number: 20170354473
    Abstract: A system for charging an onboard battery of a medical device prior to use of the medical device may include a package configured to accommodate the medical device therein. A power source may be disposed relative to the package and may be capable of charging the onboard battery of the medical device prior to use of the medical device. The system may be capable of being subjected to a sterilization process with the power source disposed within the second cavity. In some instances, the power source is uncharged during sterilization. In some cases, the power source is encapsulated or otherwise sealed during sterilization.
    Type: Application
    Filed: June 9, 2017
    Publication date: December 14, 2017
    Applicant: BOSTON SCIENTIFIC SCIMED, INC.
    Inventors: JAN WEBER, DANIEL BURGESS, KATHRYN A. JOHNSON, JAMES M. PECK
  • Publication number: 20150141256
    Abstract: This invention relates generally to composition and methods for characterizing a methylome which comprises all or substantially all methylation states of a genome. In particular, a plurality of oligonucleotides, each representing nearly every possible methylation state of the cytosine position of each CG dinucleotide pair within a target nucleic acid of interest, and methods of using the plurality are provided herein.
    Type: Application
    Filed: July 23, 2014
    Publication date: May 21, 2015
    Inventors: Daniel Burgess, Jeffrey Jeddeloh
  • Publication number: 20070284148
    Abstract: A system for damping vibration in a drill string can include a valve assembly having a supply of a fluid, a first member, and a second member capable of moving in relation to first member in response to vibration of the drill bit. The first and second members define a first and a second chamber for holding the fluid. Fluid can flow between the first and second chambers in response to the movement of the second member in relation to the first member. The valve assembly can also include a coil or a valve for varying a resistance of the fluid to flow between the first and second chambers.
    Type: Application
    Filed: April 19, 2007
    Publication date: December 13, 2007
    Inventors: Mark Wassell, William Turner, Daniel Burgess, Carl Perry
  • Publication number: 20060243487
    Abstract: A preferred embodiment of a system for rotating and guiding a drill bit in an underground bore includes a drilling motor and a drive shaft coupled to drilling motor so that drill bit can be rotated by the drilling motor. The system further includes a guidance module having an actuating arm movable between an extended position wherein the actuating arm can contact a surface of the bore and thereby exert a force on the housing of the guidance module, and a retracted position.
    Type: Application
    Filed: April 29, 2005
    Publication date: November 2, 2006
    Applicant: APS Technology, Inc.
    Inventors: William Turner, Carl Perry, Mark Wassell, Jason Barbely, Daniel Burgess, Martin Cobern
  • Publication number: 20060243489
    Abstract: A system for damping vibration in a drill string can include a valve assembly having a supply of a fluid, a first member, and a second member capable of moving in relation to first member in response to vibration of the drill bit. The first and second members define a first and a second chamber for holding the fluid. Fluid can flow between the first and second chambers in response to the movement of the second member in relation to the first member. The valve assembly can also include a coil or a valve for varying a resistance of the fluid to flow between the first and second chambers.
    Type: Application
    Filed: November 8, 2004
    Publication date: November 2, 2006
    Inventors: Mark Wassell, William Turner, Daniel Burgess, Carl Perry