Patents by Inventor Jingyue Ju

Jingyue Ju 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).

  • Synthesis of novel disulfide linker based nucleotides as reversible terminators for DNA sequencing by synthesis
    Patent number: 11959137
    Abstract: Disclosed herein, inter alia, are compounds, compositions, and methods of use thereof in the sequencing of a nucleic acid.
    Type: Grant
    Filed: August 9, 2022
    Date of Patent: April 16, 2024
    Assignee: THE TRUSTEES OF COLUMBIA UNIVERSITY IN THE CITY OF NEW YORK
    Inventors: Jingyue Ju, Xiaoxu Li, Xin Chen, Zengmin Li, Shiv Kumar, Shundi Shi, Cheng Guo, Jianyi Ren, Min-Kang Hsieh, Minchen Chien, Chuanjuan Tao, Ece Erturk, Sergey Kalachikov, James J. Russo
  • Four-color DNA sequencing by synthesis using cleavable fluorescent nucleotide reversible terminators
    Patent number: 11939631
    Abstract: This invention provides a process for sequencing single-stranded DNA by employing a nanopore and modified nucleotides.
    Type: Grant
    Filed: August 18, 2021
    Date of Patent: March 26, 2024
    Assignee: THE TRUSTEES OF COLUMBIA UNIVERSITY IN THE CITY OF NEW YORK
    Inventors: Jingyue Ju, Dae Hyun Kim, Lanrong Bi, Qinglin Meng, Xiaoxu Li
  • SINGLE-MOLECULE ELECTRONIC MULTIPLEX NANOPORE IMMUNOASSAYS FOR BIOMARKER DETECTION
    Publication number: 20230417750
    Abstract: This invention provides methods for detecting viruses, viral antigens, viral antibodies, and other antigens and antibodies using single molecule electronic nanopores and polymer tags.
    Type: Application
    Filed: June 22, 2023
    Publication date: December 28, 2023
    Applicant: The Trustees of Columbia University in the City of New York
    Inventors: Jingyue Ju, Shiv Kumar, James J. Russo, Chuanjuan Tao, Steffen Jockusch, Xiaoxu Li
  • Method of preparation of nanopore and uses thereof
    Patent number: 11795191
    Abstract: This disclosure provides systems and methods for sequencing nucleic acids using nucleotide analogues and translocation of tags from incorporated nucleotide analogues through a nanopore. In aspects, this disclosure is related to composition, method, and system for sequencing a nucleic acid using tag molecules and detection of translocation through a nanopore of tags released from incorporation of the molecule.
    Type: Grant
    Filed: April 1, 2019
    Date of Patent: October 24, 2023
    Assignees: THE TRUSTEES OF COLUMBIA UNIVERSITY IN THE CITY OF NEW YORK, GOVERNMENT OF THE UNITED STATES, AS REPRESENTED BY THE SECRETARY OF COMMERCE
    Inventors: Jingyue Ju, Shiv Kumar, Chuanjuan Tao, Minchen Chien, James J. Russo, John J. Kasianowicz, Joseph W. F. Robertson
  • Nucleic acid sequences using tags
    Patent number: 11674174
    Abstract: This disclosure provides chips, systems and methods for sequencing a nucleic acid sample. Tagged nucleotides are provided into a reaction chamber comprising a nanopore in a membrane. An individual tagged nucleotide of the tagged nucleotides can contain a tag coupled to a nucleotide, which tag is detectable with the aid of the nanopore. Next, an individual tagged nucleotide of the tagged nucleotides can be incorporated into a growing strand complementary to a single stranded nucleic acid molecule derived from the nucleic acid sample. With the aid of the nanopore, a tag associated with the individual tagged nucleotide can be detected upon incorporation of the individual tagged nucleotide. The tag can be detected with the aid of the nanopore when the tag is released from the nucleotide.
    Type: Grant
    Filed: January 6, 2020
    Date of Patent: June 13, 2023
    Assignees: THE TRUSTEES OF COLUMBIA UNIVERSITY IN THE CITY OF NEW YORK, ROCHE SEQUENCING SOLUTIONS, INC.
    Inventors: Sergey Kalachikov, Jingyue Ju, Irina Morozova, Michael Dorwart
  • THERAPEUTICS FOR COVID-19
    Publication number: 20230172961
    Abstract: This invention relates to the use of nucleoside, nucleotide and other compounds which are inhibitors or terminators of viral RNA dependent RNA polymerases or inhibitors of exonucleases as antiviral agents. These antiviral agents can be used alone or in combination with other polymerase or exonuclease inhibitors, helicase inhibitors, HCV NS5A inhibitors, HIV integrase inhibitors and HCV NS3-4A and other protease inhibitors to treat viral infections such as SARS-CoV-2, the causative agent of the COVID-19 infection.
    Type: Application
    Filed: January 29, 2021
    Publication date: June 8, 2023
    Applicant: The Trustees of Columbia University in the City of New York
    Inventors: Jingyue JU, Steffen JOCKUSCH, Chuanjuan TAO, Minchen CHIEN, James J. RUSSO, Shiv KUMAR, Xiaoxu LI, Xuanting WANG
  • SYNTHESIS OF NOVEL DISULFIDE LINKER BASED NUCLEOTIDES AS REVERSIBLE TERMINATORS FOR DNA SEQUENCING BY SYNTHESIS
    Publication number: 20230160000
    Abstract: Disclosed herein, inter alia, are compounds, compositions, and methods of use thereof in the sequencing of a nucleic acid.
    Type: Application
    Filed: August 9, 2022
    Publication date: May 25, 2023
    Applicant: The Trustees of Columbia University in the City of New York
    Inventors: Jingyue Ju, Xiaoxu Li, Xin Chen, Zengmin Li, Shiv Kumar, Shundi Shi, Cheng Guo, Jianyi Ren, Min-Kang Hsieh, Minchen Chien, Chuanjuan Tao, Ece Erturk, Sergey Kalachikov, James J. Russo
  • Nucleic acid sequencing by nanopore detection of tag molecules
    Patent number: 11608523
    Abstract: This disclosure provides systems and methods for sequencing nucleic acids using nucleotide analogues and translocation of tags from incorporated nucleotide analogues through a nanopore. In aspects, this disclosure is related to compositions, methods, and systems for sequencing nucleic acids using tag molecules and detection of translocation through a nanopore of tags released from incorporation of the molecule.
    Type: Grant
    Filed: September 22, 2017
    Date of Patent: March 21, 2023
    Assignees: THE TRUSTEES OF COLUMBIA UNIVERSITY IN THE CITY OF NEW YORK, ROCHE SEQUENCING SOLUTIONS, INC.
    Inventors: Jingyue Ju, Randall Davis, Roger Chen
  • DESIGN AND SYNTHESIS OF NOVEL DISULFIDE LINKER BASED NUCLEOTIDES AS REVERSIBLE TERMINATORS FOR DNA SEQUENCING BY SYNTHESIS
    Publication number: 20230028388
    Abstract: Disclosed herein, inter alia, are compounds, compositions, and methods of use thereof in the sequencing of a nucleic acid.
    Type: Application
    Filed: August 1, 2022
    Publication date: January 26, 2023
    Applicant: The Trustees of Columbia University in the City of New York
    Inventors: Jingyue Ju, Xiaoxu Li, Xin Chen, Zengmin Li, Shiv Kumar, Shundi Shi, Cheng Guo, Jianyi Ren, Min-Kang Hsieh, Minchen Chien, Chuanjuan Tao, Ece Erturk, Sergey Kalachikov, James J. Russo
  • NUCLEOTIDE DERIVATIVES AND METHODS OF USE THEREOF
    Publication number: 20230028321
    Abstract: Disclosed herein, inter alia, are compounds, compositions, and methods of use thereof in the sequencing a nucleic acid.
    Type: Application
    Filed: March 7, 2022
    Publication date: January 26, 2023
    Applicant: The Trustees of Columbia University in the City of New York
    Inventors: Jingyue Ju, Xin Chen, Xiaoxu Li, Zengmin Li, Min-Kang Hsieh, Minchen Chien, Shundi Shi, Jianyi Ren, Cheng Guo, Shiv Kumar, James Russo, Chuanjuan Tao, Steffen Jockusch, Sergey Kalachikov
  • CHEMICAL METHODS FOR PRODUCING TAGGED NUCLEOTIDES
    Publication number: 20230010193
    Abstract: This disclosure provides systems and methods for attaching nanopore-detectable tags to nucleotides. The disclosure also provides methods for sequencing nucleic acids using the disclosed tagged nucleotides.
    Type: Application
    Filed: July 1, 2022
    Publication date: January 12, 2023
    Applicants: The Trustees of Columbia University in the City of New York, Roche Sequencing Solutions, Inc.
    Inventors: Carl W. Fuller, Shiv Kumar, Jingyue Ju, Randall Davis, Roger Chen
  • DNA SEQUENCING BY SYNTHESIS USING MODIFIED NUCLEOTIDES AND NANOPORE DETECTION
    Publication number: 20230010731
    Abstract: This disclosure is related to a method of sequencing a single-stranded DNA using deoxynucleotide polyphosphate analogues and translocation of tags from incorporated deoxynucleotide polyphosphate analogues through a nanopore.
    Type: Application
    Filed: May 5, 2022
    Publication date: January 12, 2023
    Applicant: The Trustees of Columbia University in the City of New York
    Inventors: Jingyue Ju, Shiv Kumar, Zengmin Li, Chuanjuan Tao, Minchen Chien, James J. Russo, Sergey Kalachikov, Ken Shepard, Jacob Karl Rosenstein
  • DESIGN AND SYNTHESIS OF NOVEL DISULFIDE LINKER BASED NUCLEOTIDES AS REVERSIBLE TERMINATORS FOR DNA SEQUENCING BY SYNTHESIS
    Publication number: 20220411860
    Abstract: Disclosed herein, inter alfa, are compounds, compositions, and methods of use thereof in the sequencing of a nucleic acid.
    Type: Application
    Filed: July 12, 2021
    Publication date: December 29, 2022
    Applicant: The Trustees of Columbia University in the City of New York
    Inventors: Jingyue Ju, Xiaoxu Li, Xin Chen, Zengmin Li, Shiv Kumar, Shundi Shi, Cheng Guo, Jianyi Ren, Min-Kang Hsieh, Minchen Chien, Chuanjuan Tao, Ece Erturk, Sergey Kalachikov, James J. Russo
  • NOVEL NUCLEOTIDE ANALOGUES AND METHODS FOR USE
    Publication number: 20220372061
    Abstract: The invention provides various orthogonal nucleotide analogues and methods for using combinations of said various orthogonal nucleotide analogues for sequencing by synthesis.
    Type: Application
    Filed: July 9, 2020
    Publication date: November 24, 2022
    Applicant: The Trustees of Columbia University in the City of New York
    Inventors: Jingyue Ju, Shiv Kumar, James Russo, Xiaoxu Li, Xin Chen, Minchen Chien, Steffen Jockusch, Xuanting Wang, Irina Morozova, Chuanjuan Tao, Sergey Kalachikov, Shundi Shi
  • FLOURESCENE ENERGY TRANSFER-BASED SINGLE MOLECULE/ENSEMBLE DNA SEQUENCING BY SYNTHESIS
    Publication number: 20220364167
    Abstract: This invention provides nucleotide analogues each of which comprises a tag comprising one or more Forster resonance energy transfer (FRET) acceptor fluorophores, a nucleotide polymerase having one or more FRET donor fluorophores, and methods for sequencing single-stranded
    Type: Application
    Filed: July 7, 2022
    Publication date: November 17, 2022
    Applicant: THE TRUSTEES OF COLUMBIA UNIVERSITY IN THE CITY OF NEW YORK
    Inventors: Jingyue Ju, Shiv Kumar, James J. Russo, Steffen Jockusch, Zengmin Li, Xiaoxu Li, Sergey M. Kalachikov, Irina Morozova
  • DNA sequencing by synthesis using modified nucleotides and nanopore detection
    Patent number: 11499186
    Abstract: This disclosure is related to a method of sequencing a single-stranded DNA using deoxynucleotide polyphosphate analogues and translocation of tags from incorporated deoxynucleotide polyphosphate analogues through a nanopore.
    Type: Grant
    Filed: October 15, 2019
    Date of Patent: November 15, 2022
    Assignee: THE TRUSTEES OF COLUMBIA UNIVERSITY IN THE CITY OF NEW YORK
    Inventors: Jingyue Ju, Shiv Kumar, Zengmin Li, Chuanjuan Tao, Minchen Chien, James J. Russo, Sergey Kalachikov, Ken Shepard, Jacob Karl Rosenstein
  • DNA SEQUENCING WITH NON-FLUORESCENT NUCLEOTIDE REVERSIBLE TERMINATORS AND CLEAVABLE LABEL MODIFIED NUCLEOTIDE TERMINATORS
    Publication number: 20220290227
    Abstract: This invention provides a process for sequencing nucleic acids using 3? modified deoxynucleotide analogues or 3? modified deoxyinosine triphosphate analogues, and 3? modified dideoxynucleotide analogues having a detectable marker attached thereto.
    Type: Application
    Filed: January 14, 2022
    Publication date: September 15, 2022
    Applicant: The Trustees of Columbia University in the City of New York
    Inventors: Jingyue Ju, Dae Hyun Kim, Jia Guo, Qinglin Meng, Zengmin Li, Huanyan Cao
  • Chemical methods for producing tagged nucleotides
    Patent number: 11396677
    Abstract: This disclosure provides systems and methods for attaching nanopore-detectable tags to nucleotides. The disclosure also provides methods for sequencing nucleic acids using the disclosed tagged nucleotides.
    Type: Grant
    Filed: March 25, 2019
    Date of Patent: July 26, 2022
    Assignees: THE TRUSTEES OF COLUMBIA UNIVERSITY IN THE CITY OF NEW YORK, ROCHE SEQUENCING SOLUTIONS, INC.
    Inventors: Carl W. Fuller, Shiv Kumar, Jingyue Ju, Randall Davis, Roger Chen
  • Flourescene energy transfer-based single molecule/ensemble DNA sequencing by synthesis
    Patent number: 11384391
    Abstract: This invention provides nucleotide analogues each of which comprises a tag comprising one or more Forster resonance energy transfer (FRET) acceptor fluorophores, a nucleotide polymerase having one or more FRET donor fluorophores, and methods for sequencing single-stranded.
    Type: Grant
    Filed: April 4, 2017
    Date of Patent: July 12, 2022
    Assignee: THE TRUSTEES OF COLUMBIA UNIVERSITY IN THE CITY OF NEW YORK
    Inventors: Jingyue Ju, Shiv Kumar, James J. Russo, Steffen Jockusch, Zengmin Li, Xiaoxu Li, Sergey M. Kalachikov, Irina Morozova
  • SEQUENCING BY SYNTHESIS WITH ENERGY TRANSFER DYE PAIRS
    Publication number: 20220213542
    Abstract: The invention provides nucleotide analogues and methods of use thereof for sequencing by synthesis using energy transfer dye pairs.
    Type: Application
    Filed: April 2, 2020
    Publication date: July 7, 2022
    Applicant: THE TRUSTEES OF COLUMBIA UNIVERSITY IN THE CITY OF NEW YORK
    Inventors: Jingyue Ju, Shiv Kumar, James Russo, Xiaoxu Li, Steffen Jockusch, Minchen Chien, Chuanjuan Tao