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).

  • 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
  • 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
  • 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
  • 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
  • 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
  • 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
  • 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
  • Publication number: 20220177959
    Abstract: Disclosed herein are highly accurate approaches for single molecule electronic nanopore-based SBS.
    Type: Application
    Filed: March 5, 2020
    Publication date: June 9, 2022
    Applicant: The Trustees of Columbia University in the City of New York
    Inventors: Jingyue Ju, Carl W. Fuller, Shiv Kumar, Sergey Kalachikov, Xiaoxu Li, Irina Morozova, James Russo, Steffen Jockusch
  • Publication number: 20220112552
    Abstract: This invention provides novel azido linkers for deoxynucleotide analogues having a detectable marker attached thereto.
    Type: Application
    Filed: December 23, 2021
    Publication date: April 14, 2022
    Applicant: The Trustees of Columbia University in the City of New York
    Inventors: Jingyue Ju, Huanyan Cao, Zengmin Li, Qinglin Meng, Jia Guo, Shenglong Zhang, Lin Yu
  • Patent number: 11266673
    Abstract: Disclosed herein, inter alia, are compounds, compositions, and methods of use thereof in the sequencing a nucleic acid.
    Type: Grant
    Filed: May 23, 2017
    Date of Patent: March 8, 2022
    Assignee: 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 J. Russo, Chuanjuan Tao, Steffen Jockusch, Sergey Kalachikov
  • Patent number: 11242561
    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: Grant
    Filed: April 15, 2019
    Date of Patent: February 8, 2022
    Assignee: 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
  • Patent number: 11225687
    Abstract: This invention provides nucleoside polyphosphate analogues each of which comprises a tag comprising a plurality of Raman-scattering moieties; compounds comprising said nucleoside polyphosphate analogs. This invention also provides nucleotide polymerases with one or more attached and/or conjugated noble metal nanoparticles, wherein the noble metal nanoparticles are surface-enhanced Raman spectroscopy (SERS) substrates thereby creating a region of enhanced sensitivity for surface enhanced Raman spectroscopy (SERS) within or adjacent to the polymerase. This invention also provides a surface with regions of enhanced sensitivity for surface enhanced Raman spectroscopy comprising interspersed rough or nanostructured noble metal surface. This invention also provides methods for determining the sequence of a single stranded DNA or RNA polynucleotide using one or more of nucleoside polyphosphate analogues, polymerase with noble metal nanoparticles, and surface with noble metal.
    Type: Grant
    Filed: April 4, 2017
    Date of Patent: January 18, 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 Kalachikov, Irina Morozova
  • Patent number: 11208691
    Abstract: This invention provides novel azido linkers for deoxynucleotide analogues having a detectable marker attached thereto.
    Type: Grant
    Filed: December 3, 2018
    Date of Patent: December 28, 2021
    Assignee: The Trustees of Columbia University in the City of New York
    Inventors: Jingyue Ju, Huanyan Cao, Zengmin Li, Qinglin Meng, Jia Guo, Shenglong Zhang, Lin Yu
  • Publication number: 20210381043
    Abstract: This invention provides a process for sequencing single-stranded DNA by employing a nanopore and modified nucleotides.
    Type: Application
    Filed: August 18, 2021
    Publication date: December 9, 2021
    Applicant: The Trustees of Columbia University in the City of New York
    Inventors: Jingyue Ju, Dae Hyun Kim, Lanrong Bi, Qinglin Meng, Xiaoxu Li
  • Publication number: 20210285041
    Abstract: Disclosed herein, inter alia, are nucleotide analogues, and methods of use thereof, having cleavable orthogonal linkers.
    Type: Application
    Filed: March 28, 2018
    Publication date: September 16, 2021
    Applicant: The Trustees of Columbia University in the City of New York
    Inventors: Jingyue Ju, Xiaoxu Li, Xin Chen, Shiv Kumar, James Russo, Minchen Chien
  • Patent number: 11098353
    Abstract: This invention provides a process for sequencing single-stranded DNA employing modified nucleotides.
    Type: Grant
    Filed: December 20, 2019
    Date of Patent: August 24, 2021
    Assignee: THE TRUSTEES OF COLUMBIA UNIVERSITY IN THE CITY OF NEW YORK
    Inventors: Jingyue Ju, Dae Hyun Kim, Lanrong Bi, Qinglin Meng, Xiaoxu Li
  • Patent number: 11085076
    Abstract: Disclosed herein, inter alia, are compounds, compositions, and methods of use thereof in the sequencing of a nucleic acid.
    Type: Grant
    Filed: September 28, 2016
    Date of Patent: August 10, 2021
    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
  • Publication number: 20210199641
    Abstract: The present application discloses novel and inventive methods, apparatuses, and the required molecules to detect compounds (analytes) utilizing antibodies or other protein-binding molecules and nanopore-detectable tags using specially designed nanopores, coupled with ionic current readout, to provide a single molecule electronic detection solution, offering unique opportunities for multiplexing and quantitation.
    Type: Application
    Filed: January 22, 2021
    Publication date: July 1, 2021
    Applicant: The Trustees of Columbia University in the City of New York
    Inventors: Jingyue Ju, James J. Russo, Sergey Kalachikov, Chuanjuan Tao, Shiv Kumar, Irina Morozova, Xiaoxu Li
  • Publication number: 20210139976
    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: March 14, 2019
    Publication date: May 13, 2021
    Applicant: The Trustees of Columbia University in the City of New York
    Inventors: Jingyue Ju, Xiaoxu Li, Shiv Kumar, Xin Chen, James J. Russo, Minchen Chien, Steffen Jockusch, Chuanjuan Tao, Xuanting Wang, Sergey Kalachikov, Irina Morozova, Shundi Shi
  • Patent number: 10907194
    Abstract: This invention provides a process for making 3?-O-allyl-dGTP-PC-Biodopy-FL-510, 3?-O-allyl-dATP-PC-ROX, 3?-O-allyl-dCTP-PC-Bodipy-650 and 3?-O-allyl-dUTP-PC-R6G, and related methods.
    Type: Grant
    Filed: January 11, 2016
    Date of Patent: February 2, 2021
    Assignee: The Trustees of Columbia University in the City of New York
    Inventors: Jingyue Ju, Qinglin Meng, Dae H Kim, Lanrong Bi, Xiaopeng Bai, Nicholas J Turro