Patents by Inventor James Anthony Clarke

James Anthony Clarke 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: 20190187094
    Abstract: To form a layer separating two volumes of aqueous solution, there is used an apparatus comprising elements defining a chamber, the elements including a body of non-conductive material having formed therein at least one recess opening into the chamber, the recess containing an electrode. A pre-treatment coating of a hydrophobic fluid is applied to the body across the recess. Aqueous solution, having amphiphilic molecules added thereto, is flowed across the body to cover the recess so that aqueous solution is introduced into the recess from the chamber and a layer of the amphiphilic molecules forms across the recess separating a volume of aqueous solution introduced into the recess from the remaining volume of aqueous solution.
    Type: Application
    Filed: March 6, 2019
    Publication date: June 20, 2019
    Inventors: Stuart William Reid, Terence Alan Reid, James Anthony Clarke, Steven Paul White, Gurdial Singh Sanghera
  • Publication number: 20190154655
    Abstract: A time-ordered series of measurements of a polymer made during translocation of the polymer through a Nanopore are analysed. The measurements are dependent on the identity of k-mers in the Nanopore, a k-mer bring k polymer units of the polymer, where k is a positive integer. The method involves deriving, from the series of measurements, a feature vector of time-ordered features representing characteristics of the measurements; and determining similarity between the derived feature vector and at least one other feature vector.
    Type: Application
    Filed: January 11, 2019
    Publication date: May 23, 2019
    Applicant: Oxford Nanopore Technologies Ltd.
    Inventors: Stuart William Reid, James Anthony Clarke, James White, Gavin Harper
  • Patent number: 10221450
    Abstract: The invention relates to new methods of moving helicases past spacers on polynucleotides and controlling the loading of helicases on polynucleotides. The invention also relates to new methods of characterizing target polynucleotides using helicases.
    Type: Grant
    Filed: January 22, 2014
    Date of Patent: March 5, 2019
    Assignee: Oxford Nanopore Technologies Ltd.
    Inventors: Andrew John Heron, David Antoni Alves, James Anthony Clarke, Marion Louise Crawford, Daniel Ryan Garalde, Graham Hall, Daniel John Turner, James White
  • Publication number: 20190002972
    Abstract: The invention relates to constructs comprising a transmembrane protein pore subunit and a nucleic acid handling enzyme. The pore subunit is covalently attached to the enzyme such that both the subunit and enzyme retain their activity. The constructs can be used to generate transmembrane protein pores having a nucleic acid handling enzyme attached thereto. Such pores are particularly useful for sequencing nucleic acids. The enzyme handles the nucleic acid in such a way that the pore can detect its component nucleotides by stochastic sensing.
    Type: Application
    Filed: September 12, 2018
    Publication date: January 3, 2019
    Applicant: Oxford Nanopore Technologies Ltd.
    Inventors: Lakmal Jayasinghe, John Hagan Pryce Bayley, Stephen Cheley, Brian McKeown, James White, James Anthony Clarke
  • Patent number: 10167503
    Abstract: The invention relates to mutant forms of Msp. The invention also relates to polynucleotide characterization using Msp.
    Type: Grant
    Filed: May 1, 2015
    Date of Patent: January 1, 2019
    Assignee: Oxford Nanopore Technologies Ltd.
    Inventors: James Anthony Clarke, Andrew John Heron, Lakmal Jayasinghe, Elizabeth Jayne Wallace
  • Publication number: 20180321188
    Abstract: To form a layer separating two volumes of aqueous solution, there is used an apparatus comprising elements defining a chamber, the elements including a body of non-conductive material having formed therein at least one recess opening into the chamber, the recess containing an electrode. A pre-treatment coating of a hydrophobic fluid is applied to the body across the recess. Aqueous solution, having amphiphilic molecules added thereto, is flowed across the body to cover the recess so that aqueous solution is introduced into the recess from the chamber and a layer of the amphiphilic molecules forms across the recess separating a volume of aqueous solution introduced into the recess from the remaining volume of aqueous solution.
    Type: Application
    Filed: February 26, 2018
    Publication date: November 8, 2018
    Applicant: Oxford Nanopore Technologies Ltd.
    Inventors: Stuart William Reid, Terence Alan Reid, James Anthony Clarke, Steven Paul White, Gurdial Singh Sanghera
  • Publication number: 20180291441
    Abstract: The invention relates to a new method of sequencing a double stranded target polynucleotide. The two strands of the double stranded target polynucleotide are linked by a bridging moiety. The two strands of the target polynucleotide are separated using a polynucleotide binding protein and the target polynucleotide is sequenced using a transmembrane pore.
    Type: Application
    Filed: April 3, 2018
    Publication date: October 11, 2018
    Applicant: Oxford Nanopore Technologies Ltd.
    Inventors: Clive Gavin Brown, James Anthony Clarke, Graham Hall, Gavin Harper, Andrew John Heron, James White
  • Patent number: 10077471
    Abstract: The invention relates to constructs comprising a transmembrane protein pore subunit and a nucleic acid handling enzyme. The pore subunit is covalently attached to the enzyme such that both the subunit and enzyme retain their activity. The constructs can be used to generate transmembrane protein pores having a nucleic acid handling enzyme attached thereto. Such pores are particularly useful for sequencing nucleic acids. The enzyme handles the nucleic acid in such a way that the pore can detect its component nucleotides by stochastic sensing.
    Type: Grant
    Filed: September 18, 2015
    Date of Patent: September 18, 2018
    Assignee: Oxford Nanopore Technologies Ltd.
    Inventors: Lakmal Jayasinghe, John Hagan Pryce Bayley, Stephen Cheley, Brian McKeown, James White, James Anthony Clarke
  • Publication number: 20180230526
    Abstract: The invention relates to methods using constructs comprising a helicase and an additional polynucleotide binding moiety. The helicase is attached to the polynucleotide binding moiety and the construct has the ability to control the movement of a polynucleotide. The constructs can be used to control the movement of polynucleotides and are particularly useful for sequencing polynucleotides.
    Type: Application
    Filed: September 14, 2017
    Publication date: August 16, 2018
    Applicant: Oxford Nanopore Technologies Ltd.
    Inventors: Andrew John Heron, James Anthony Clarke, Ruth Moysey, Elizabeth Jayne Wallace, Mark Bruce, Lakmal Jayasinghe, Domenico Caprotti, Szabolcs Soeroes, Luke McNeill, Mihaela Misca
  • Publication number: 20180208632
    Abstract: The invention relates to mutant forms of lysenin. The invention also relates to analyte characterisation using lysenin.
    Type: Application
    Filed: August 31, 2017
    Publication date: July 26, 2018
    Applicant: Oxford Nanopore Technologies Ltd.
    Inventors: Mark Bruce, James Anthony Clarke, Andrew John Heron, Lakmal Jayasinghe, Elizabeth Jayne Wallace
  • Publication number: 20180148481
    Abstract: The invention relates to mutant forms of CsgG. The invention also relates to analyte detection and characterisation using CsgG.
    Type: Application
    Filed: September 1, 2015
    Publication date: May 31, 2018
    Applicants: Oxford Nanopore Technologies Ltd., VIB VZW, Vrije Universiteit Brussel
    Inventors: Stefan Howorka, Han Remaut, Lakmal Jayasinghe, Elizabeth Jayne Wallace, James Anthony Clarke, Richard George Hambley, Jonathan Bankes Pugh
  • Patent number: 9957560
    Abstract: The invention relates to a new method of sequencing a double stranded target polynucleotide. The two strands of the double stranded target polynucleotide are linked by a bridging moiety. The two strands of the target polynucleotide are separated using a polynucleotide binding protein and the target polynucleotide is sequenced using a transmembrane pore.
    Type: Grant
    Filed: July 25, 2012
    Date of Patent: May 1, 2018
    Assignee: Oxford Nanopore Technologies Ltd.
    Inventors: Clive Gavin Brown, James Anthony Clarke, Graham Hall, Gavin Harper, Andrew John Heron, James White
  • Publication number: 20180087101
    Abstract: The invention relates to a new method of determining the presence, absence or one or more characteristics of multiple analytes. The invention concerns coupling a first analyte to a membrane containing a detector and investigating the first analyte using the detector. The invention also concerns coupling a second analyte to the membrane and investigating the second analyte. The first analyte is uncoupled from the membrane prior to investigating the second analyte. The invention also relates to polynucleotide sequencing.
    Type: Application
    Filed: March 31, 2015
    Publication date: March 29, 2018
    Applicant: Oxford Nanopore Technologies Ltd.
    Inventors: James Anthony Clarke, Marion Louise Crawford, James White
  • Patent number: 9927398
    Abstract: To form a layer separating two volumes of aqueous solution, there is used an apparatus comprising elements defining a chamber, the elements including a body of non-conductive material having formed therein at least one recess opening into the chamber, the recess containing an electrode. A pre-treatment coating of a hydrophobic fluid is applied to the body across the recess. Aqueous solution, having amphiphilic molecules added thereto, is flowed across the body to cover the recess so that aqueous solution is introduced into the recess from the chamber and a layer of the amphiphilic molecules forms across the recess separating a volume of aqueous solution introduced into the recess from the remaining volume of aqueous solution.
    Type: Grant
    Filed: June 30, 2015
    Date of Patent: March 27, 2018
    Assignee: Oxford Nanopore Technologies Ltd.
    Inventors: Stuart William Reid, Terence Alan Reid, James Anthony Clarke, Steven Paul White, Gurdial Singh Sanghera
  • Patent number: 9885078
    Abstract: The invention relates to constructs comprising a transmembrane protein pore subunit and a nucleic acid handling enzyme. The pore subunit is covalently attached to the enzyme such that both the subunit and enzyme retain their activity. The constructs can be used to generate transmembrane protein pores having a nucleic acid handling enzyme attached thereto. Such pores are particularly useful for sequencing nucleic acids. The enzyme handles the nucleic acid in such a way that the pore can detect its component nucleotides by stochastic sensing.
    Type: Grant
    Filed: August 8, 2014
    Date of Patent: February 6, 2018
    Assignee: Oxford Nanopore Technologies Limited
    Inventors: Lakmal Jayasinghe, John Hagan Pryce Bayley, Stephen Cheley, Brian McKeown, James White, James Anthony Clarke
  • Publication number: 20180030526
    Abstract: The invention relates to hetero-oligomeric pores derived from Msp. The invention also relates to polynucleotide characterisation using the hetero-oligomeric pores.
    Type: Application
    Filed: February 17, 2016
    Publication date: February 1, 2018
    Applicant: Oxford Nanopore Technologies Ltd.
    Inventors: Clive Gavin Brown, James Anthony Clarke, Richard George Hambley, Andrew John Heron, Lakmal Jayasinghe, John Milton, Jonathan Bankes Pugh, Elizabeth Jayne Wallace
  • Publication number: 20170363577
    Abstract: To form a layer separating two volumes of aqueous solution, there is used an apparatus comprising elements defining a chamber, the elements including a body of non-conductive material having formed therein at least one recess opening into the chamber, the recess containing an electrode. A pre-treatment coating of a hydrophobic fluid is applied to the body across the recess. Aqueous solution, having amphiphilic molecules added thereto, is flowed across the body to cover the recess so that aqueous solution is introduced into the recess from the chamber and a layer of the amphiphilic molecules forms across the recess separating a volume of aqueous solution introduced into the recess from the remaining volume of aqueous solution.
    Type: Application
    Filed: February 16, 2017
    Publication date: December 21, 2017
    Applicant: Oxford Nanopore Technologies Ltd.
    Inventors: Stuart William Reid, Terence Alan Reid, James Anthony Clarke, Steven Paul White, Gurdial Singh Sanghera
  • Publication number: 20170356037
    Abstract: The invention relates to mutant forms of Msp. The invention also relates to polynucleotide characterisation using Msp.
    Type: Application
    Filed: May 1, 2015
    Publication date: December 14, 2017
    Applicant: Oxford Nanopore Technologies Ltd.
    Inventors: James Anthony Clarke, Andrew John Heron, Lakmal Jayasinghe, Elizabeth Jayne Wallace
  • Publication number: 20170335384
    Abstract: The invention relates to constructs comprising a transmembrane protein pore subunit and a nucleic acid handling enzyme. The pore subunit is covalently attached to the enzyme such that both the subunit and enzyme retain their activity. The constructs can be used to generate transmembrane protein pores having a nucleic acid handling enzyme attached thereto. Such pores are particularly useful for sequencing nucleic acids. The enzyme handles the nucleic acid in such a way that the pore can detect its component nucleotides by stochastic sensing.
    Type: Application
    Filed: August 3, 2017
    Publication date: November 23, 2017
    Applicant: Oxford Nanopore Technologies Ltd.
    Inventors: Lakmal Jayasinghe, John Hagan Pryce Bayley, Stephen Cheley, Brian McKeown, James White, James Anthony Clarke
  • Publication number: 20170283470
    Abstract: The invention relates to mutant forms of the outer membrane located lipoprotein CsgG, in particular, modifications at one or more of positions Tyr51; Asn55; and Phe56. The invention also relates to analyte detection and characterisation using said mutant CsgG.
    Type: Application
    Filed: September 1, 2015
    Publication date: October 5, 2017
    Applicants: Oxford Nanopore Technologies Ltd., VIB VZW, Vrije Universiteit Brussel
    Inventors: Stefan Howorka, Han Remaut, Lakmal Jayasinghe, Elizabeth Jayne Wallace, James Anthony Clarke, Richard George Hambley, Jonathan Bankes Pugh