Patents by Inventor Jack Dong

Jack Dong 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).

  • Methods and compositions for reducing base errors of massive parallel sequencing using triseq sequencing
    Patent number: 12091715
    Abstract: Methods and compositions for making DNA libraries for massive parallel next generation sequencing (NGS), comprises two parts. These methods may be referred to as Triseq sequencing. The first part includes ligating a UMI adapter, amplifying the DNA fragments in the presence of dUTP, enriching the target molecules through primer extension by using a panel of both forward and reverse primers, and removing the dU-containing template DNA. The DNA molecules are organized to primary clones and subclones, labeled by the UMI on 5? and 3? end of the DNA fragments, respectively. The second part includes sequencing the DNA library by NGS, deducing consensus sequence from each subclone, and from within each primary clone, and between the consensus sequences obtained from both forward and reverse primers.
    Type: Grant
    Filed: March 8, 2023
    Date of Patent: September 17, 2024
    Assignee: Paragon Genomics, Inc.
    Inventors: Zhitong Liu, David Debruyne, Jack Dong, Michael Clark, Yutao Fu, Vidushi Kapoor, Kalyani Patankar, Fang Xie, Logan Tom
  • METHODS AND COMPOSITIONS FOR REDUCING BASE ERRORS OF MASSIVE PARALLEL SEQUENCING USING TRISEQ SEQUENCING
    Publication number: 20230340588
    Abstract: Methods and compositions for making DNA libraries for massive parallel next generation sequencing (NGS), comprises two parts. These methods may be referred to as Triseq sequencing. The first part includes ligating a UMI adapter, amplifying the DNA fragments in the presence of dUTP, enriching the target molecules through primer extension by using a panel of both forward and reverse primers, and removing the dU-containing template DNA. The DNA molecules are organized to primary clones and subclones, labeled by the UMI on 5? and 3? end of the DNA fragments, respectively. The second part includes sequencing the DNA library by NGS, deducing consensus sequence from each subclone, and from within each primary clone, and between the consensus sequences obtained from both forward and reverse primers.
    Type: Application
    Filed: March 8, 2023
    Publication date: October 26, 2023
    Inventors: Zhitong LIU, David DEBRUYNE, Jack DONG, Michael CLARK, Yutao FU, Vidushi KAPOOR, Kalyani PATANKAR, Fang XIE, Logan TOM
  • Methods and compositions for amplifying DNA and generating DNA sequencing results from target-enriched DNA molecules
    Patent number: 11680293
    Abstract: Methods, apparatuses and compositions for generating highly sensitive and accurate sequencing results of massive parallel sequencing (NGS). The methods and compositions may be referred to as SubDivision-Seq, and may comprise two parts. The first part includes making a target-enriched DNA library, organizing the UMIs on DNA molecules to form primary clones and subdividing the primary clones into subclones. The second part includes sequencing the DNA library by NGS, deducing consensus sequence from each subclone, then deducing consensus sequence in each primary clone.
    Type: Grant
    Filed: April 21, 2022
    Date of Patent: June 20, 2023
    Assignee: Paragon Genomics, Inc.
    Inventors: Zhitong Liu, David Debruyne, Jack Dong, Michael Clark, Yutao Fu, Chenyu Li, Vidushi Kapoor, Kalyani Patankar