Patents by Inventor Scott Kuersten

Scott Kuersten 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: 20240026348
    Abstract: Materials and methods for preparing nucleic acid libraries for next-generation sequencing are described herein. A variety of approaches are described relating to the use of unique molecular identifiers with transposon-based technology in the preparation of sequencing libraries. Also described herein are sequencing materials and methods for identifying and correcting amplification and sequencing errors.
    Type: Application
    Filed: September 28, 2023
    Publication date: January 25, 2024
    Applicants: Illumina, Inc., Illumina Cambridge Limited
    Inventors: Susan C. Verity, Robert Scott Kuersten, Niall Anthony Gormley, Andrew B. Kennedy, Sarah E. Shultzaberger, Andrew Slatter, Emma Bell, Sebastien Georg Gabriel Ricoult, Grace DeSantis, Fiona Kaper, Han-Yu Chuang, Oliver Jon Miller, Jason Richard Betley, Stephen M. Gross, Mats Ekstrand
  • Publication number: 20240003055
    Abstract: Presented herein are methods and compositions for analyzing rare nucleic acid species. Some methods presented herein use DNA reassociation kinetics following thermal denaturation to define populations of nucleic acid sequences, e.g., highly abundant (e.g., cDNA from rRNA), moderately abundant, and less abundant or rare sequences (e.g., cDNA from mRNA).
    Type: Application
    Filed: September 6, 2023
    Publication date: January 4, 2024
    Applicant: ILLUMINA, INC.
    Inventors: Scott Kuersten, Agnes Radek, Ramesh Vaidyanathan, Haiying Li Grunenwald
  • Patent number: 11795578
    Abstract: Presented herein are methods and compositions for analyzing rare nucleic acid species. Some methods presented herein use DNA reassociation kinetics following thermal denaturation to define populations of nucleic acid sequences, e.g., highly abundant (e.g., cDNA from rRNA), moderately abundant, and less abundant or rare sequences (e.g., cDNA from mRNA).
    Type: Grant
    Filed: April 25, 2022
    Date of Patent: October 24, 2023
    Assignee: Illumina, Inc.
    Inventors: Scott Kuersten, Agnes Radek, Ramesh Vaidyanathan, Haiying Li Grunenwald
  • Publication number: 20230183682
    Abstract: This application describes methods of preparing an immobilized library of tagged RNA fragments. Also described herein are a number of methods of preparing DNA and RNA sequencing libraries from a single sample. These methods can include library preparation from single cells.
    Type: Application
    Filed: February 2, 2023
    Publication date: June 15, 2023
    Applicants: Illumina, Inc., Illumina Cambridge Limited
    Inventors: Niall Anthony Gormley, Andrew B. Kennedy, Robert Scott Kuersten, Gary Schroth, Carlo Randise-Hinchliff, Sarah E. Shultzaberger, Fiona Kaper, Yir-Shyuan Wu, Tarun Khurana, Foad Mashayekhi
  • Publication number: 20230094911
    Abstract: Described herein are solid supports and methods for depleting library fragments prepared from unwanted RNA sequences and/or enriching library fragments prepared from desired RNA sequences. These methods may incorporate microfluidics and flowcells for greater ease of use. Libraries enriched or depleted with the present methods may be used for sequencing. Also described are probes and methods for enzymatic depletion of ribosomal RNA from human microbiome samples.
    Type: Application
    Filed: September 30, 2022
    Publication date: March 30, 2023
    Applicant: ILLUMINA, INC.
    Inventors: Robert Scott Kuersten, Jeffrey Koble
  • Publication number: 20220403370
    Abstract: The present disclosure is related to methods and materials for depleting unwanted RNA species from a nucleic acid sample. In particular, the present disclosure describes how to remove unwanted rRNA, tRNA, mRNA or other RNA species that could interfere with the analysis, manipulation and study of target RNA molecules in a sample.
    Type: Application
    Filed: July 14, 2022
    Publication date: December 22, 2022
    Applicant: ILLUMINA, INC.
    Inventors: Scott Kuersten, Frederick Hyde, Asako Tetsubayashi
  • Publication number: 20220275428
    Abstract: Presented herein are methods and compositions for analyzing rare nucleic acid species. Some methods presented herein use DNA reassociation kinetics following thermal denaturation to define populations of nucleic acid sequences, e.g., highly abundant (e.g., cDNA from rRNA), moderately abundant, and less abundant or rare sequences (e.g., cDNA from mRNA).
    Type: Application
    Filed: April 25, 2022
    Publication date: September 1, 2022
    Applicant: Epicentre Technologies Corporation
    Inventors: Scott Kuersten, Agnes Radek, Ramesh Vaidyanathan, Haiying Li Grunenwald
  • Patent number: 11421216
    Abstract: The present disclosure is related to methods and materials for depleting unwanted RNA species from a nucleic acid sample. In particular, the present disclosure describes how to remove unwanted rRNA, tRNA, mRNA or other RNA species that could interfere with the analysis, manipulation and study of target RNA molecules in a sample.
    Type: Grant
    Filed: December 19, 2019
    Date of Patent: August 23, 2022
    Assignee: ILLUMINA, INC.
    Inventors: Scott Kuersten, Frederick W. Hyde, Asako Tetsubayashi
  • Patent number: 11339422
    Abstract: Presented herein are methods and compositions for analyzing rare nucleic acid species. Some methods presented herein use DNA reassociation kinetics following thermal denaturation to define populations of nucleic acid sequences, e.g., highly abundant (e.g., cDNA from rRNA), moderately abundant, and less abundant or rare sequences (e.g., cDNA from mRNA).
    Type: Grant
    Filed: March 26, 2020
    Date of Patent: May 24, 2022
    Assignee: Illumina, Inc.
    Inventors: Scott Kuersten, Agnes Radek, Ramesh Vaidyanathan, Haiying Li Grunenwald
  • Patent number: 10829808
    Abstract: Compositions, methods, and kits for detecting one or more species of RNA molecules are disclosed. In one embodiment, a first adaptor and a second adaptor are ligated to the RNA molecule using a polypeptide comprising double-strand specific RNA ligase activity, without an intervening purification step. The ligated product is reverse transcribed, then at least some of the ribonucleosides in the reverse transcription product are removed. Primers are added and amplified products are generated. In certain embodiments, the sequence of at least part of at least one species of amplified product is determined and at least part of the corresponding RNA molecule is determined. In some embodiments, at least some of the amplified product species are detected, directly or indirectly, allowing the presence and/or quantity of the RNA molecule of interest to be determined.
    Type: Grant
    Filed: March 25, 2019
    Date of Patent: November 10, 2020
    Assignee: Applied Biosystems, LLC
    Inventor: R. Scott Kuersten
  • Publication number: 20200255887
    Abstract: Presented herein are methods and compositions for analyzing rare nucleic acid species. Some methods presented herein use DNA reassociation kinetics following thermal denaturation to define populations of nucleic acid sequences, e.g., highly abundant (e.g., cDNA from rRNA), moderately abundant, and less abundant or rare sequences (e.g., cDNA from mRNA).
    Type: Application
    Filed: March 26, 2020
    Publication date: August 13, 2020
    Applicant: EPICENTRE TECHNOLOGIES CORPORATION
    Inventors: Scott Kuersten, Agnes Radek, Ramesh Vaidyanathan, Haiying Grunenwald
  • Publication number: 20200199572
    Abstract: The present disclosure is related to methods and materials for depleting unwanted RNA species from a nucleic acid sample. In particular, the present disclosure describes how to remove unwanted rRNA, tRNA, mRNA or other RNA species that could interfere with the analysis, manipulation and study of target RNA molecules in a sample.
    Type: Application
    Filed: December 19, 2019
    Publication date: June 25, 2020
    Applicant: EPICENTRE TECHNOLOGIES CORPORATION
    Inventors: Scott Kuersten, Frederick W. Hyde, Asako Tetsubayashi
  • Patent number: 10640809
    Abstract: Presented herein are methods and compositions for analyzing rare nucleic acid species. Some methods presented herein use DNA reassociation kinetics following thermal denaturation to define populations of nucleic acid sequences, e.g., highly abundant (e.g., cDNA from rRNA), moderately abundant, and less abundant or rare sequences (e.g., cDNA from mRNA).
    Type: Grant
    Filed: May 27, 2016
    Date of Patent: May 5, 2020
    Assignee: EPICENTRE TECHNOLOGIES CORPORATION
    Inventors: Scott Kuersten, Agnes Radek, Ramesh Vaidyanathan, Haiying Li Grunenwald
  • Patent number: 10544403
    Abstract: Presented herein are transposase enzymes and reaction conditions for improved fragmentation and tagging of nucleic acid samples, in particular altered transposases and reaction conditions which exhibit improved insertion sequence bias, as well as methods and kits using the same.
    Type: Grant
    Filed: April 29, 2019
    Date of Patent: January 28, 2020
    Assignee: ILLUMINA, INC.
    Inventors: Christian Gloeckner, Amirali Kia, Erin Bomati, Molly He, Haiying Li Grunenwald, Scott Kuersten, Trina Faye Osothprarop, Darin Haskins, Joshua Burgess, Anupama Khanna, Daniel Schlingman, Ramesh Vaidyanathan
  • Publication number: 20190359955
    Abstract: Presented herein are transposase enzymes and reaction conditions for improved fragmentation and tagging of nucleic acid samples, in particular altered transposases and reaction conditions which exhibit improved insertion sequence bias, as well as methods and kits using the same.
    Type: Application
    Filed: April 29, 2019
    Publication date: November 28, 2019
    Inventors: Christian GLOECKNER, Amirali KIA, Erin BOMATI, Molly HE, Haiying Li GRUNENWALD, Scott KUERSTEN, Trina Faye OSOTHPRAROP, Darin HASKINS, Joshua BURGESS, Anupama KHANNA, Daniel SCHLINGMAN, Ramesh VAIDYANATHAN
  • Patent number: 10385323
    Abstract: Presented herein are transposase enzymes and reaction conditions for improved fragmentation and tagging of nucleic acid samples, in particular altered transposases and reaction conditions which exhibit improved insertion sequence bias, as well as methods and kits using the same.
    Type: Grant
    Filed: June 28, 2018
    Date of Patent: August 20, 2019
    Assignee: ILLUMINA, INC.
    Inventors: Christian Gloeckner, Amirali Kia, Erin Bomati, Molly He, Haiying Li Grunenwald, Scott Kuersten, Trina Faye Osothprarop, Darin Haskins, Joshua Burgess, Anupama Khanna, Daniel Schlingman, Ramesh Vaidyanathan
  • Publication number: 20190211387
    Abstract: Compositions, methods, and kits for detecting one or more species of RNA molecules are disclosed. In one embodiment, a first adaptor and a second adaptor are ligated to the RNA molecule using a polypeptide comprising double-strand specific RNA ligase activity, without an intervening purification step. The ligated product is reverse transcribed, then at least some of the ribonucleosides in the reverse transcription product are removed. Primers are added and amplified products are generated. In certain embodiments, the sequence of at least part of at least one species of amplified product is determined and at least part of the corresponding RNA molecule is determined. In some embodiments, at least some of the amplified product species are detected, directly or indirectly, allowing the presence and/or quantity of the RNA molecule of interest to be determined.
    Type: Application
    Filed: March 25, 2019
    Publication date: July 11, 2019
    Inventor: R. Scott KUERSTEN
  • Patent number: 10240191
    Abstract: Compositions, methods, and kits for detecting one or more species of RNA molecules are disclosed. In one embodiment, a first adaptor and a second adaptor are ligated to the RNA molecule using a polypeptide comprising double-strand specific RNA ligase activity, without an intervening purification step. The ligated product is reverse transcribed, then at least some of the ribonucleosides in the reverse transcription product are removed. Primers are added and amplified products are generated. In certain embodiments, the sequence of at least part of at least one species of amplified product is determined and at least part of the corresponding RNA molecule is determined. In some embodiments, at least some of the amplified product species are detected, directly or indirectly, allowing the presence and/or quantity of the RNA molecule of interest to be determined.
    Type: Grant
    Filed: November 3, 2017
    Date of Patent: March 26, 2019
    Assignee: Applied Biosystems, LLC
    Inventor: R. Scott Kuersten
  • Publication number: 20180298356
    Abstract: Presented herein are transposase enzymes and reaction conditions for improved fragmentation and tagging of nucleic acid samples, in particular altered transposases and reaction conditions which exhibit improved insertion sequence bias, as well as methods and kits using the same.
    Type: Application
    Filed: June 28, 2018
    Publication date: October 18, 2018
    Applicant: ILLUMINA, INC.
    Inventors: Christian Gloeckner, Amirali Kia, Erin Bomati, Molly He, Haiying Li Grunenwald, Scott Kuersten, Trina Faye Osothprarop, Darin Haskins, Joshua Burgess, Anupama Khanna, Daniel Schlingman, Ramesh Vaidyanathan
  • Patent number: 10035992
    Abstract: Presented herein are transposase enzymes and reaction conditions for improved fragmentation and tagging of nucleic acid samples, in particular altered transposases and reaction conditions which exhibit improved insertion sequence bias, as well as methods and kits using the same.
    Type: Grant
    Filed: October 12, 2017
    Date of Patent: July 31, 2018
    Assignee: ILLUMINA, INC.
    Inventors: Christian Gloeckner, Amirali Kia, Erin Bomati, Molly He, Haiying Li Grunenwald, Scott Kuersten, Trina Faye Osothprarop, Darin Haskins, Joshua Burgess, Anupama Khanna, Daniel Schlingman, Ramesh Vaidyanathan