Patents by Inventor David A. Ahlquist

David A. Ahlquist 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: 20140205517
    Abstract: This document provides methods and materials involved in collecting and processing complex macromolecular mixtures (e.g., stool samples). For example, stool collection devices, buffers for stabilizing nucleic acid and polypeptides present in stool, and kits for using sequence-specific capture probes (e.g., nucleic acid sequences designed to hybridize with particular target nucleic acids) to capture target nucleic acids directly from complex macromolecular mixtures (e.g., stool samples) without the need to perform prior steps to enrich, isolate, or purify the nucleic acid component are provided.
    Type: Application
    Filed: March 28, 2014
    Publication date: July 24, 2014
    Applicant: MAYO FOUNDATION FOR MEDICAL EDUCATION AND RESEARCH
    Inventors: David A. Ahlquist, Jonathan J. Harrington, Hongzhi Zou, Patrick S. Quint, William R. Taylor
  • Patent number: 8735168
    Abstract: This document provides methods and materials involved in removing polypeptides (e.g., high abundance polypeptides) from stool samples. For example, methods and materials for preparing a stool sample for detecting polypeptides of low abundance are provided. For example, this document provides methods and materials for depleting abundant polypeptides common to stool from normal, healthy humans from a stool sample. Such depleted stool samples can be used to detect polypeptides of interest such as low abundance polypeptides or neoplasm-specific polypeptide markers that can be present in a mammal suffering from a disease such as cancer.
    Type: Grant
    Filed: November 21, 2008
    Date of Patent: May 27, 2014
    Assignee: Mayo Foundation for Medical Education and Research
    Inventors: David A. Ahlquist, Harold R. Bergen, Patrick S. Quint, Jonathan J. Harrington
  • Patent number: 8722330
    Abstract: This document provides methods and materials involved in collecting and processing complex macromolecular mixtures (e.g., stool samples). For example, stool collection devices, buffers for stabilizing nucleic acid and polypeptides present in stool, and kits for using sequence-specific capture probes (e.g., nucleic acid sequences designed to hybridize with particular target nucleic acids) to capture target nucleic acids directly from complex macromolecular mixtures (e.g., stool samples) without the need to perform prior steps to enrich, isolate, or purify the nucleic acid component are provided.
    Type: Grant
    Filed: June 22, 2012
    Date of Patent: May 13, 2014
    Assignee: Mayo Foundation for Medical Education and Research
    Inventors: David A. Ahlquist, Jonathan J. Harrington, Hongzhi Zou, Patrick S. Quint, William R. Taylor
  • Patent number: 8673555
    Abstract: This document relates to methods and materials for detecting premalignant and malignant neoplasms. For example, methods and materials for determining whether or not a stool sample from a mammal contains nucleic acid markers or polypeptide markers of a neoplasm are provided.
    Type: Grant
    Filed: February 11, 2009
    Date of Patent: March 18, 2014
    Assignee: Mayo Foundation for Medical Education and Research
    Inventors: William R. Taylor, Jonathan J. Harrington, Patrick S. Quint, Hongzhi Zou, Harold R. Bergen, III, David I. Smith, David A. Ahlquist
  • Publication number: 20140057262
    Abstract: This document provides methods and materials related to detecting premalignant or malignant neoplasms (e.g., colorectal and pancreatic cancer). For example, methods and materials for assessing the contents of phagocytes for the presence of one or more biological markers (e.g., Alu repeats or methylated nucleic acid) of premalignant or malignant neoplasms are provided.
    Type: Application
    Filed: March 14, 2012
    Publication date: February 27, 2014
    Applicant: Mayo Foundation for Medical Education and Research
    Inventors: David A. Ahlquist, William R. Taylor
  • Publication number: 20130244235
    Abstract: The present invention provides methods and materials related to the detection of colorectal neoplasia (CRN) associated with inflammatory bowel disease (IBD). The present invention provides markers specific for colorectal neoplasia associated with inflammatory bowel disease in or associated with a subject's stool sample. In particular, the present invention provides methods and materials for identifying mammals (e.g., humans) having colorectal neoplasia associated with inflammatory bowel disease by detecting the presence and level of indicators of colorectal neoplasia such as, for example, epigenetic alterations (e.g., DNA methylation) (e.g., CpG methylation) (e.g., CpG methylation in coding or regulatory regions of BMP3, NDRG4, vimentin, EYA4) in DNA from a stool sample obtained from the mammal.
    Type: Application
    Filed: February 22, 2013
    Publication date: September 19, 2013
    Applicant: Mayo Foundation for Medical Education and Research
    Inventors: David A. Ahlquist, William R. Taylor, Tracy C. Yab, John B. Kisiel
  • Publication number: 20130012410
    Abstract: The present invention provides methods and materials related to the detection of colorectal neoplasm-specific markers (e.g., markers associated with colorectal cancer, markers associated with adenoma) in or associated with a subject's stool sample. In particular, the present invention provides methods and materials for identifying mammals (e.g., humans) having a colorectal neoplasm by detecting the presence and level of indicators of colorectal neoplasia such as, for example, long DNA (e.g., quantified by Alu PCR) and the presence and level of tumor-associated gene alterations (e.g., mutations in KRAS, APC, melanoma antigen gene, p53, BRAF, BAT26, PIK3CA) or epigenetic alterations (e.g., DNA methylation) (e.g., CpG methylation) (e.g., CpG methylation in coding or regulatory regions of bmp-3, bmp-4, SFRP2, vimentin, septin9, ALX4, EYA4, TFPI2, NDRG4, FOXE1) in DNA from a stool sample obtained from the mammal.
    Type: Application
    Filed: March 25, 2011
    Publication date: January 10, 2013
    Applicant: MAYO FOUNDATION FOR MEDICAL EDUCATION AND RESEARCH
    Inventors: Hongzhi Zou, David A. Ahlquist
  • Publication number: 20120288956
    Abstract: This document provides methods and materials involved in collecting and processing complex macromolecular mixtures (e.g., stool samples). For example, stool collection devices, buffers for stabilizing nucleic acid and polypeptides present in stool, and kits for using sequence-specific capture probes (e.g., nucleic acid sequences designed to hybridize with particular target nucleic acids) to capture target nucleic acids directly from complex macromolecular mixtures (e.g., stool samples) without the need to perform prior steps to enrich, isolate, or purify the nucleic acid component are provided.
    Type: Application
    Filed: June 22, 2012
    Publication date: November 15, 2012
    Applicant: MAYO FOUNDATION FOR MEDICAL EDUCATION AND RESEARCH
    Inventors: David A. Ahlquist, Jonathan J. Harrington, Hongzhi Zou, Patrick S. Quint, William R. Taylor
  • Publication number: 20120196756
    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: February 2, 2012
    Publication date: August 2, 2012
    Applicants: MAYO FOUNDATION FOR MEDICAL EDUCATION AND RESEARCH, EXACT SCIENCES CORPORATION
    Inventors: David A. Ahlquist, William R. Taylor, Hongzhi Zou, Graham P. Lidgard
  • Publication number: 20120028367
    Abstract: This document provides methods and materials involved in removing polypeptides (e.g., high abundance polypeptides) from stool samples. For example, methods and materials for preparing a stool sample for detecting polypeptides of low abundance are provided.
    Type: Application
    Filed: November 21, 2008
    Publication date: February 2, 2012
    Inventors: David A. Ahlquist, Harold R. Bergen, Patrick S. Quint, Jonathan J. Harrington
  • Publication number: 20110236916
    Abstract: The present invention provides methods and materials related to the detection of colorectal neoplasm-specific markers in or associated with a subject's stool sample. In particular, the present invention provides methods and materials for identifying mammals having a colorectal neoplasm by detecting the presence of exfoliated epithelial markers (e.g., human DNA, tumor associated gene alterations, tumor associated proteins) and blood markers (e.g., homoglobin, serum proteins) in a stool sample obtained from the mammal.
    Type: Application
    Filed: March 25, 2011
    Publication date: September 29, 2011
    Applicant: MAYO FOUNDATION FOR MEDICAL EDUCATION AND RESEARCH
    Inventors: Hongzhi Zou, David Ahlquist, Jonathan J. Harrington
  • Publication number: 20110183328
    Abstract: This document relates to methods and materials for detecting premalignant and malignant neoplasms. For example, methods and materials for determining whether or not a stool sample from a mammal contains nucleic acid markers or polypeptide markers of a neoplasm are provided.
    Type: Application
    Filed: February 11, 2009
    Publication date: July 28, 2011
    Applicant: MAYO FOUNDATION FOR MEDICAL EDUCATION AND RESEARCH
    Inventors: William R. Taylor, Jonathan J. Harrington, Patrick S. Quint, Hongzhi Zou, Harold R. Bergen, III, David I. Smith, David A. Ahlquist
  • Publication number: 20100297658
    Abstract: This document includes methods and materials for enriching and detecting cancer markers. For example, this document includes methods and materials for enriching methylated mammalian nucleic acid from stool samples.
    Type: Application
    Filed: August 6, 2010
    Publication date: November 25, 2010
    Applicant: MAYO FOUNDATION FOR MEDICAL EDUCATION AND RESEARCH
    Inventors: David A. Ahlquist, Hongzhi Zou
  • Patent number: 7785772
    Abstract: This document includes methods and materials for enriching and detecting cancer markers. For example, this document includes methods and materials for enriching methylated mammalian nucleic acid from stool samples.
    Type: Grant
    Filed: January 23, 2008
    Date of Patent: August 31, 2010
    Assignee: Mayo Foundation for Medical Education and Research
    Inventors: David A. Ahlquist, Hongzhi Zou
  • Publication number: 20100121046
    Abstract: This document provides methods and materials involved in collecting and processing complex macromolecular mixtures (e.g., stool samples). For example, stool collection devices, buffers for stabilizing nucleic acid and polypeptides present in stool, and kits for using sequence-specific capture probes (e.g., nucleic acid sequences designed to hybridize with particular target nucleic acids) to capture target nucleic acids directly from complex macromolecular mixtures (e.g., stool samples) without the need to perform prior steps to enrich, isolate, or purify the nucleic acid component are provided.
    Type: Application
    Filed: September 8, 2009
    Publication date: May 13, 2010
    Applicant: MAYO FOUNDATION FOR MEDICAL EDUCATION AND RESEARCH
    Inventors: David A. Ahlquist, Jonathan J. Harrington, Hongzhi Zou, Patrick S. Quint, William R. Taylor
  • Publication number: 20080254547
    Abstract: The invention provides methods and materials for detecting supracolonic aerodigestive premalignant and malignant neoplasms. Specifically, the invention provides methods and materials for determining whether a stool sample from a mammal contains a neoplasm-specific marker from a neoplasm located in the supracolonic aerodigestive tissue of a mammal.
    Type: Application
    Filed: March 5, 2008
    Publication date: October 16, 2008
    Inventors: Anthony P. Shuber, David A. Ahlquist
  • Publication number: 20080220433
    Abstract: This document includes methods and materials for enriching and detecting cancer markers. For example, this document includes methods and materials for enriching methylated mammalian nucleic acid from stool samples.
    Type: Application
    Filed: January 23, 2008
    Publication date: September 11, 2008
    Applicant: MAYO FOUNDATION FOR MEDICAL EDUCATION AND RESEARCH
    Inventors: David A. Ahlquist, Hongzhi Zou
  • Patent number: 7368233
    Abstract: The invention provides methods and materials for detecting supracolonic aerodigestive premalignant and malignant neoplasms. Specifically, the invention provides methods and materials for determining whether a stool sample from a mammal contains a neoplasm-specific marker from a neoplsm located in the supracolonic aerodigestive tissue of a mammal.
    Type: Grant
    Filed: December 7, 2000
    Date of Patent: May 6, 2008
    Assignees: Exact Sciences Corporation, Mayo Foundation for Medical Education and Research
    Inventors: Anthony P. Shuber, David A. Ahlquist
  • Publication number: 20040043467
    Abstract: The invention provides methods and materials for detecting supracolonic aerodigestive premalignant and malignant neoplasms. Specifically, the invention provides methods and materials for determining whether a stool sample from a mammal contains a neoplasm-specific marker from a neoplsm located in the supracolonic aerodigestive tissue of a mammal.
    Type: Application
    Filed: March 18, 2003
    Publication date: March 4, 2004
    Inventors: Anthony P. Shuber, David A. Ahlquist
  • Patent number: 5945411
    Abstract: A method for protecting a colorectum against a recurrence of adenomas is provided, wherein ursodeoxycholic acid or an amide-conjugate thereof, or ursodeoxycholic acid or an amide-conjugate thereof in combination with sulindac or a phenolic NSAID is administered to a patient afflicted with colorectal adenomas in an amount effective to prevent the recurrence of colorectal adenomas following the removal thereof.
    Type: Grant
    Filed: September 23, 1998
    Date of Patent: August 31, 1999
    Assignee: Mayo Foundation for Medical Education and Research
    Inventors: Mark V. Larson, David A. Ahlquist, Randall K. Pearson