Patents by Inventor Graham P. Lidgard

Graham P. Lidgard 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).

  • Multiplex amplification detection assay
    Patent number: 10704081
    Abstract: Provided herein is technology relating to the amplification-based detection of bisulfite-treated DNAs and particularly, but not exclusively, to methods and compositions for multiplex amplification of low-level sample DNA prior to further characterization of the sample DNA. The technology further provides methods for isolating DNA from blood or blood product samples, e.g., plasma samples.
    Type: Grant
    Filed: October 26, 2016
    Date of Patent: July 7, 2020
    Assignee: EXACT SCIENCES DEVELOPMENT COMPANY, LLC
    Inventors: Graham P. Lidgard, Hatim Allawi
  • Modification of DNA on magnetic beads
    Patent number: 10704083
    Abstract: Provided herein is technology related to the chemical modification and purification of DNA. Specifically, the technology provides methods for performing a bisulfite conversion reaction on small amounts of single-stranded, fragmented DNA and performing the subsequent desulfonation and purification steps on magnetic beads.
    Type: Grant
    Filed: October 18, 2018
    Date of Patent: July 7, 2020
    Assignee: Exact Sciences Development Company, LLC
    Inventors: Michael J. Domanico, Hatim Allawi, Graham P. Lidgard, Brian Aizenstein, Oliver Hunt, Tobias Charles Zutz
  • Detecting neoplasm
    Patent number: 10683555
    Abstract: Provided herein is technology relating to detecting neoplasia and particularly, but not exclusively, to methods, compositions, and related uses for detecting premalignant and malignant neoplasms such as pancreatic and colorectal cancer.
    Type: Grant
    Filed: May 14, 2018
    Date of Patent: June 16, 2020
    Assignees: Mayo Foundation for Medical Education and Research, Exact Sciences Development Company, LLC
    Inventors: David A. Ahlquist, John B. Kisiel, William R. Taylor, Tracy C. Yab, Douglas W. Mahoney, Graham P. Lidgard, Hatim T. Allawi
  • DETECTING ESOPHAGEAL DISORDERS
    Publication number: 20200172982
    Abstract: Provided herein is technology for esophageal disorder screening and particularly, but not exclusively, to methods, compositions, and related uses for detecting the presence of esophageal disorders (e.g., Barrett's esophagus, Barrett's esophageal dysplasia, etc.). In addition, the technology provides methods, compositions and related uses for distinguishing between Barrett's esophagus and Barrett's esophageal dysplasia, and between Barrett's esophageal low-grade dysplasia, Barrett's esophageal high-grade dysplasia, and esophageal adenocarcinoma within samples obtained through endoscopic brushing or nonendoscopic whole esophageal brushing or swabbing using a tethered device (e.g. such as a capsule sponge, balloon, or other device).
    Type: Application
    Filed: September 13, 2019
    Publication date: June 4, 2020
    Inventors: David A. Ahlquist, William R. Taylor, John B. Kisiel, Douglas W. Mahoney, Tracy C. Yab, Graham P. Lidgard, Hatim T. Allawi
  • Multiplex amplification detection assay II
    Patent number: 10648025
    Abstract: Provided herein is technology relating to the amplification-based detection of bisulfite-treated DNAs and particularly, but not exclusively, to methods and compositions for multiplex amplification of low-level sample DNA prior to further characterization of the sample DNA. The technology further provides methods for isolating DNA from blood or blood product samples, e.g., plasma samples.
    Type: Grant
    Filed: December 13, 2017
    Date of Patent: May 12, 2020
    Assignee: EXACT SCIENCES DEVELOPMENT COMPANY, LLC
    Inventors: Hatim T. Allawi, William G. Weisburg, Graham P. Lidgard, Michael W. Kaiser, Abram M. Vaccaro, Gracie Shea
  • DETECTING COLORECTAL NEOPLASM
    Publication number: 20200131588
    Abstract: Provided herein is technology relating to detecting neoplasia and particularly, but not exclusively, to methods, compositions, and related uses for detecting premalignant and malignant neoplasms such as colorectal cancer.
    Type: Application
    Filed: January 9, 2020
    Publication date: April 30, 2020
    Inventors: David A. Ahlquist, William R. Taylor, Douglas W. Mahoney, Graham P. Lidgard, Hatim T. Allawi
  • Multiplexed KRAS mutation detection assay
    Patent number: 10626465
    Abstract: Provided herein is reagent mixture comprising multiplexed amplification reagents and flap assay reagents for detecting, in a single reaction, mutant copies of the KRAS gene that contain any of the 34A, 34C, 34T, 35A, 35C, 35T or 38A point mutations. Methods that employ the reagent mix and kits for performing the same are also provided.
    Type: Grant
    Filed: August 27, 2018
    Date of Patent: April 21, 2020
    Assignee: EXACT SCIENCES DEVELOPMENT COMPANY, LLC
    Inventors: Rebecca Oldham-Haltom, Hatim Allawi, Hongzhi Zou, Michael J. Domanico, Graham P. Lidgard
  • DETECTING HEPATOCELLULAR CARCINOMA
    Publication number: 20200115761
    Abstract: Provided herein is technology for hepatocellular carcinoma screening and particularly, but not exclusively, to methods, compositions, and related uses for detecting the presence of hepatocellular carcinoma.
    Type: Application
    Filed: October 8, 2019
    Publication date: April 16, 2020
    Inventors: William R. Taylor, David A. Ahlquist, Douglas W. Mahoney, John B. Kisiel, Tracy C. Yab, Hatim T. Allawi, Maria Giakoumopoulos, Graham P. Lidgard
  • Real time cleavage assay
    Patent number: 10604793
    Abstract: A cleavage-based real-time PCR assay method is provided. In general terms, the assay method includes subjecting a reaction mixture comprising a) PCR reagents for amplifying a nucleic acid target, and b) flap cleavage reagents for performing a flap cleavage assay on the amplified nucleic acid target to two sets of thermocycling conditions. No additional reagents are added to the reaction between said first and second sets of cycles and, in each cycle of the second set of cycles, cleavage of a flap probe is measured.
    Type: Grant
    Filed: March 11, 2016
    Date of Patent: March 31, 2020
    Assignee: EXACT SCIENCES DEVELOPMENT COMPANY, LLC
    Inventors: Rebecca Oldham-Haltom, Hongzhi Zou, Graham P. Lidgard, Michael J. Domanico, Hatim Allawi
  • DIGITAL SEQUENCE ANALYSIS OF DNA METHYLATION
    Publication number: 20200048720
    Abstract: The present invention relates to methods and compositions for determination of and uses of specific methylation patterns indicative of adenoma and carcinoma. In particular, the invention relates to analysis of defined CpG loci that are coordinately methylated in DNAs from cancer and adenoma samples, methods for identifying coordinately methylated loci, and methods of using analysis of coordinately methylated loci in one or more marker regions in the design of assays for adenoma and cancer.
    Type: Application
    Filed: October 28, 2019
    Publication date: February 13, 2020
    Inventors: David A. Ahlquist, William R. Taylor, Hongzhi Zou, Graham P. Lidgard
  • NUCLEIC ACID CONTROL MOLECULES FROM NON-HUMAN ORGANISMS
    Publication number: 20200040377
    Abstract: The present invention provides synthetic DNA strands that find use as process controls in DNA processing and nucleic acid testing methods. In particular, provided herein are synthetic methylated DNA strands of known composition for use as control molecules in DNA testing, e.g., of mutations and/or methylation of DNA isolated from non-fish samples, such as human samples.
    Type: Application
    Filed: July 19, 2017
    Publication date: February 6, 2020
    Inventors: Hatim T. Allawi, Graham P. Lidgard, Brian Aizenstein, Melissa M. Gray
  • MUTATION DETECTION ASSAY
    Publication number: 20200002775
    Abstract: A method of sample analysis is provided. In certain embodiments, the method involves: a) amplifying a product from a sample that comprises both wild type copies of a genomic locus and mutant copies of the genomic locus that have a point mutation relative to said wild type copies of the genomic locus, to produce an amplified sample, where: i. the amplifying is done using a first primer and a second primer; and ii. the first primer comprises a 3? terminal nucleotide that base pairs with the point mutation and also comprises a nucleotide sequence that is fully complementary to a sequence in the locus with the exception of a single base mismatch within 6 bases of the 3? terminal nucleotide; and b) detecting the presence of said product in said amplified sample using a flap assay that employs an invasive oligonucleotide. A kit for performing the method is also provided.
    Type: Application
    Filed: September 12, 2019
    Publication date: January 2, 2020
    Inventors: Hongzhi Zou, Graham P. Lidgard, Michael J. Domanico, Hatim Allawi
  • Digital sequence analysis of DNA methylation
    Patent number: 10519510
    Abstract: The present invention relates to methods and compositions for determination of and uses of specific methylation patterns indicative of adenoma and carcinoma. In particular, the invention relates to analysis of defined CpG loci that are coordinately methylated in DNAs from cancer and adenoma samples, methods for identifying coordinately methylated loci, and methods of using analysis of coordinately methylated loci in one or more marker regions in the design of assays for adenoma and cancer.
    Type: Grant
    Filed: September 28, 2016
    Date of Patent: December 31, 2019
    Assignee: EXACT SCIENCES DEVELOPMENT COMPANY, LLC
    Inventors: David A. Ahlquist, William R. Taylor, Hongzhi Zou, Graham P. Lidgard
  • METHYLATION ASSAY
    Publication number: 20190345567
    Abstract: A method for detecting a methylated genomic locus is provided. In certain embodiments, the method comprises: a) treating a nucleic acid sample that contains both unmethylated and methylated copies of a genomic locus with an agent that modifies cytosine to uracil to produce a treated nucleic acid; b) amplifying a product from the treated nucleic acid using a first primer and a second primer, wherein the first primer hybridizes to a site in the locus that contain methylcytosines and the amplifying preferentially amplifies the methylated copies of the genomic locus, to produce an amplified sample; and c) detecting the presence of amplified methylated copies of the genomic locus in the amplified sample using a flap assay that employs an invasive oligonucleotide having a 3? terminal G or C nucleotide that corresponds to a site of methylation in the genomic locus.
    Type: Application
    Filed: July 25, 2019
    Publication date: November 14, 2019
    Inventors: Graham P. Lidgard, Michael J. Domanico, Hatim Allawi, Hongzhi Zou
  • Method of characterizing ZDHHC1 DNA
    Patent number: 10465248
    Abstract: Provided herein is technology relating compositions and methods for detecting tissue cell-specific DNA, such as epithelial cell-specific DNA, in blood or blood products from a subject. The technology also relates to use of tissue cell-specific DNAs as internal controls for methylation assays.
    Type: Grant
    Filed: December 11, 2015
    Date of Patent: November 5, 2019
    Assignee: EXACT SCIENCES DEVELOPMENT COMPANY, LLC
    Inventors: Hatim T. Allawi, Graham P. Lidgard
  • Method of characterizing ZDHHC1 DNA
    Patent number: 10465249
    Abstract: Provided herein is technology relating compositions and methods for detecting tissue cell-specific DNA in blood or blood products from a subject of a subject having cancer. The technology also relates to use of tissue cell-specific DNAs as internal controls for methylation assays.
    Type: Grant
    Filed: December 11, 2015
    Date of Patent: November 5, 2019
    Assignee: EXACT SCIENCES DEVELOPMENT COMPANY, LLC
    Inventors: Hatim T. Allawi, Graham P. Lidgard
  • DETECTION OF LUNG NEOPLASIA BY ANALYSIS OF METHYLATED DNA
    Publication number: 20190330702
    Abstract: Provided herein is technology for lung neoplasia screening and particularly, but not exclusively, to methods, compositions, and related uses for detecting the presence of lung cancer.
    Type: Application
    Filed: July 2, 2019
    Publication date: October 31, 2019
    Inventors: Hatim Allawi, Graham P. Lidgard, Maria Giakoumopoulos, David A. Ahlquist, William R. Taylor, Douglas Mahoney
  • Mutation detection assay
    Patent number: 10450614
    Abstract: A method of sample analysis is provided. In certain embodiments, the method involves: a) amplifying a product from a sample that comprises both wild type copies of a genomic locus and mutant copies of the genomic locus that have a point mutation relative to said wild type copies of the genomic locus, to produce an amplified sample, where: i. the amplifying is done using a first primer and a second primer; and ii. the first primer comprises a 3? terminal nucleotide that base pairs with the point mutation and also comprises a nucleotide sequence that is fully complementary to a sequence in the locus with the exception of a single base mismatch within 6 bases of the 3? terminal nucleotide; and b) detecting the presence of said product in said amplified sample using a flap assay that employs an invasive oligonucleotide. A kit for performing the method is also provided.
    Type: Grant
    Filed: May 23, 2018
    Date of Patent: October 22, 2019
    Assignee: EXACT SCIENCES DEVELOPMENT COMPANY, LLC
    Inventors: Hongzhi Zou, Graham P. Lidgard, Michael J. Domanico, Hatim Allawi
  • Detecting esophageal disorders
    Patent number: 10435755
    Abstract: Provided herein is technology for esophageal disorder screening and particularly, but not exclusively, to methods, compositions, and related uses for detecting the presence of esophageal disorders (e.g., Barrett's esophagus, Barrett's esophageal dysplasia, etc.). In addition, the technology provides methods, compositions and related uses for distinguishing between Barrett's esophagus and Barrett's esophageal dysplasia, and between Barrett's esophageal low-grade dysplasia, Barrett's esophageal high-grade dysplasia, and esophageal adenocarcinoma within samples obtained through endoscopic brushing or nonendoscopic whole esophageal brushing or swabbing using a tethered device (e.g. such as a capsule sponge, balloon, or other device).
    Type: Grant
    Filed: March 23, 2016
    Date of Patent: October 8, 2019
    Assignees: Exact Sciences Development Company, LLC, Mayo Foundation for Medical Education and Research
    Inventors: David A. Ahlquist, William R. Taylor, John B. Kisiel, Douglas W. Mahoney, Tracy C. Yab, Graham P. Lidgard, Hatim T. Allawi
  • METHOD FOR STABILIZING HEMOGLOBIN AND REAGENTS FOR PERFORMING THE SAME
    Publication number: 20190302129
    Abstract: A stool resuspension solution comprising a hemoglobin stabilization reagent is provided. In some embodiments, the hemoglobin stabilization reagent may be an osmolyte, a polyvalent cation, a sugar or polysaccharide and, optionally, a polyvalent cation, a protoporphyrin, or an HRP stabilization component and, optionally, a polyvalent cation. A method of stabilizing hemoglobin in a stool sample in the solution is also provided, as well as a sample collection device containing the solution.
    Type: Application
    Filed: March 15, 2019
    Publication date: October 3, 2019
    Inventors: Keith D. Fourrier, Jacquelyn T. Hennek, Michael J. Domanico, William G. Weisburg, Graham P. Lidgard, Kathleen S. Harings, Daniel J. Simpson