Patents by Inventor Jeffrey M. Nivala

Jeffrey M. Nivala 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: 20240060125
    Abstract: In some embodiments, a molecular tagging system that uses synthetic DNA-based tags is provided. In some embodiments, a kit for tagging objects with molecular tags is provided that comprises a plurality of molbit reservoirs. Each molbit reservoir is associated with a molbit and includes nucleic acid molecules that represent the molbit. In some embodiments, a method is provided wherein a digital tag value is determined, the digital tag value is converted to a molbit tag value, nucleic acid molecules associated with each molbit value indicated as present in the molbit tag value are combined, and the combined nucleic acid molecules are applied to an object to tag the object. In some embodiments, a system is provided that includes a computing system configured to receive raw nanopore signals from a sequencing device, to identify molbits based on the signals, and to determine a digital tag based on the identified molbits.
    Type: Application
    Filed: May 10, 2023
    Publication date: February 22, 2024
    Applicant: University of Washington
    Inventors: Luis H. Ceze, Kathryn J. Doroschak, Jeffrey M. Nivala
  • Publication number: 20220396758
    Abstract: Described herein is a device and method for translocating a protein through a nanopore and monitoring electronic changes caused by different amino acids in the protein. The device comprises a nanopore in a membrane, an amplifier for providing a voltage between the cis side and trans side of the membrane, and an NTP driven unfoldase which processed the protein to be trans-located. The exemplified unfoldase is the ClpX unfoldase from E. coli.
    Type: Application
    Filed: May 16, 2022
    Publication date: December 15, 2022
    Inventors: Jeffrey M. NIVALA, Douglas B. MARKS, Mark A. AKESON
  • Publication number: 20200370111
    Abstract: In some embodiments, a molecular tagging system that uses synthetic DNA-based tags is provided. In some embodiments, a kit for tagging objects with molecular tags is provided that comprises a plurality of molbit reservoirs. Each molbit reservoir is associated with a molbit and includes nucleic acid molecules that represent the molbit. In some embodiments, a method is provided wherein a digital tag value is determined, the digital tag value is converted to a molbit tag value, nucleic acid molecules associated with each molbit value indicated as present in the molbit tag value are combined, and the combined nucleic acid molecules are applied to an object to tag the object. In some embodiments, a system is provided that includes a computing system configured to receive raw nanopore signals from a sequencing device, to identify molbits based on the signals, and to determine a digital tag based on the identified molbits.
    Type: Application
    Filed: May 20, 2020
    Publication date: November 26, 2020
    Applicant: University of Washington
    Inventors: Luis H. Ceze, Kathryn J. Doroschak, Jeffrey M. Nivala
  • Publication number: 20160032236
    Abstract: Described herein is a device and method for translocating a protein through a nanopore and monitoring electronic changes caused by different amino acids in the protein. The device comprises a nanopore in a membrane, an amplifier for providing a voltage between the cis side and trans side of the membrane, and an NTP driven unfoldase which processed the protein to be translocated. The exemplified unfoldase is the ClpX unfoldase from E. coli.
    Type: Application
    Filed: February 15, 2013
    Publication date: February 4, 2016
    Applicant: THE REGENTS OF THE UNIVERSITY OF CALIFORNIA
    Inventors: Jeffrey M Nivala, Douglas B Marks, Mark A Akeson
  • Publication number: 20140113291
    Abstract: Four novel sequences of type B DNA polymerases and variants and analogues thereof useful for applications involving DNA polymerization in high salt conditions.
    Type: Application
    Filed: June 10, 2012
    Publication date: April 24, 2014
    Inventors: David L Bernick, Andrew Holmes, Jeffrey M. Nivala