Patents Examined by Ethan C. Whisenant
  • Patent number: 11225685
    Abstract: Methods and systems for detecting allelic imbalance using nucleic acid sequencing are provided.
    Type: Grant
    Filed: March 11, 2020
    Date of Patent: January 18, 2022
    Assignee: MYRIAD GENETICS, INC.
    Inventors: Alexander Gutin, Kirsten Timms, Jerry Lanchbury
  • Patent number: 11221327
    Abstract: Methods for diagnosing or monitoring endometriosis in a mammal are provided. The methods include the steps of determining the expression levels of BDNF, glycodelin and optionally ZAG, in a biological sample from the mammal, and determining that the mammal has endometriosis when the biomarker expression levels in the sample are elevated.
    Type: Grant
    Filed: June 26, 2017
    Date of Patent: January 11, 2022
    Assignees: McMaster University, The Regents of the University of California
    Inventors: Warren Foster, Jocelyn Wessels, Sanjay Agarwal, Leyla Soleymani
  • Patent number: 11214825
    Abstract: The present disclosure relates to methods and compositions involving HCR reactions that involve initiators that are split into two or more parts. Effective HCR is dependent upon two or more of these split initiators being brought into proximity (e.g., via binding events mediated by a target) such that a full initiator is formed that is capable of triggering HCR signal amplification.
    Type: Grant
    Filed: September 12, 2019
    Date of Patent: January 4, 2022
    Assignee: California Institute of Technology
    Inventors: Niles A. Pierce, Harry M. T. Choi
  • Patent number: 11208677
    Abstract: The present invention relates to methods for detecting and quantifying intact protein-polynucleotide conjugate molecules in various sample matrices. In particular, the methods utilize triplex forming oligonucleotides in combination with protein-specific binding partners to respectively detect the polynucleotide and protein components of the conjugate molecules.
    Type: Grant
    Filed: June 6, 2019
    Date of Patent: December 28, 2021
    Assignee: AMGEN INC.
    Inventors: Mai Thayer, Sara Humphreys
  • Patent number: 11203777
    Abstract: The present invention provides a method for preparing a sterilized composition suitable for stabilizing an extracellular nucleic acid population of a biological sample. Also provided are sterilizable compositions, wherein the compositions in sterilized form are suitable for stabilizing an extracellular nucleic acid population of a biological sample. Further useful methods, devices, kits and uses are also provided. Further sterilisable and sterilized compositions described herein are also suitable to stabilize intracellular nucleic acids (e.g. intracellular DNA such as genomic DNA and/or intracellular RNA) and cell characteristics, such as e.g. cell surface proteins and/or the cell morphology.
    Type: Grant
    Filed: November 21, 2016
    Date of Patent: December 21, 2021
    Assignee: QIAGEN GmbH
    Inventors: Daniel Grölz, Andrea Ullius
  • Patent number: 11203768
    Abstract: The invention is directed to a system comprising a lentivirus vector particle which encodes at least one guide RNA sequence that is complementary to a first DNA sequence in a host cell genome, a Cas9 protein, and optionally a donor nucleic acid molecule comprising a second DNA sequence. The invention also is directed to a method of altering a DNA sequence in a host cell using such a system, where the host cell can be in a human and the altered DNA can be of the human ?-globin gene. The invention also is directed to a fusion protein comprising a Cas9 protein and a cyclophilin A (CypA) protein. The invention also is directed to sequences of vectors that can be used in the system and method.
    Type: Grant
    Filed: April 2, 2018
    Date of Patent: December 21, 2021
    Assignee: The United States of America, as represented by the Secretary, Department of Health and Human Services
    Inventors: Naoya Uchida, Juan J. Haro Mora, John F. Tisdale
  • Patent number: 11203750
    Abstract: This disclosure relates to analyzing the end-to-end sequence and the relative distributions in heterogeneous mixtures of polynucleotides and methods and enabling reagents related thereto.
    Type: Grant
    Filed: February 1, 2019
    Date of Patent: December 21, 2021
    Assignees: Emory University, The Johns Hopkins University
    Inventors: Mark C. Emerick, William S. Agnew
  • Patent number: 11193121
    Abstract: The present disclosure provides compositions, methods, systems, and devices for polynucleotide processing. Such polynucleotide processing may be useful for a variety of applications, including polynucleotide sequencing.
    Type: Grant
    Filed: October 25, 2018
    Date of Patent: December 7, 2021
    Assignee: 10X GENOMICS, INC.
    Inventors: Benjamin Hindson, Serge Saxonov, Kevin Ness, Paul Hardenbol, Christopher Hindson, Donald Masquelier, Mirna Jarosz, Michael Schnall-Levin
  • Patent number: 11193171
    Abstract: This invention generally relates to lncRNAs and methods for diagnosing cardiac pathologies in a subject. The invention also provides methods for treating a cardiac pathology in a subject comprising administering to said subject an effective amount of a modulator of one or more lncRNAs of the invention.
    Type: Grant
    Filed: December 19, 2014
    Date of Patent: December 7, 2021
    Assignee: UNIVERSITÉ DE LAUSANNE
    Inventors: Samir Ounzain, Thierry Pedrazzini
  • Patent number: 11193163
    Abstract: The present disclosure provides methods and systems for detecting nucleic acid sequences in a biological sample having a three-dimensional matrix. The present disclosure also provides methods and systems for processing a biological sample for use in nucleic acid sequence detection.
    Type: Grant
    Filed: November 6, 2019
    Date of Patent: December 7, 2021
    Assignee: ReadCoor, LLC
    Inventors: Evan Daugharthy, Richard Terry
  • Patent number: 11186839
    Abstract: The present disclosure provides nucleic acid molecules, and kits comprising the same, for producing templated assembly products for a cell.
    Type: Grant
    Filed: November 16, 2017
    Date of Patent: November 30, 2021
    Assignee: TriBiotica LLC
    Inventors: Ian Dunn, Matthew Lawler
  • Patent number: 11175285
    Abstract: This invention allows ultra-low levels of virtually any biological analyte to be detected and quantified rapidly, simply and inexpensively with an electrochemical biosensor using a novel electrochemically detectable tag that replaces optical labels. The tag binds to an analyte directly, or indirectly using one or more ligands and particles, and consists of a quadruplex electrochemically detectable oligonucleotide rich in guanine, or a single-stranded electrochemically detectable oligonucleotide rich in guanine that self-assembles into a quadruplex electrochemically detectable oligonucleotide when exposed to cations that enable quadruplex self-assembly. Quadruplex electrochemically detectable oligonucleotide tags are exposed, adsorbed or hybridized at the surface of a biosensor working electrode. An electrochemical technique facilitates the quadruplex tags to produce 8-oxoguanine oxidation signals proportional to the analyte level in the samples.
    Type: Grant
    Filed: October 13, 2017
    Date of Patent: November 16, 2021
    Inventor: Neil Gordon
  • Patent number: 11168366
    Abstract: The present disclosure relates to kits for determining the length of a region of tandem repeats in a subject's genome. In some embodiments, the region of tandem repeats in telomeres.
    Type: Grant
    Filed: May 28, 2020
    Date of Patent: November 9, 2021
    Assignee: Arizona Board of Regents on behalf of Arizona State University
    Inventors: Wayne Frasch, Fusheng Xiong
  • Patent number: 11168350
    Abstract: Provided herein is a method and system for analyzing a sample. In some embodiments the method makes use of a plurality of capture agents that are each linked to a different oligonucleotide and a corresponding plurality of labeled nucleic acid probes, wherein each of the labeled nucleic acid probes specifically hybridizes with only one of the oligonucleotides. The sample is labeled with the capture agents en masse, and sub-sets of the capture agents are detected using iterative cycles using corresponding subsets of the labeled nucleic acid probes.
    Type: Grant
    Filed: June 14, 2019
    Date of Patent: November 9, 2021
    Assignee: The Board of Trustees of the Leland Stanford Junior University
    Inventors: Garry P. Nolan, Nikolay Samusik, Julia Kennedy-Darling, Yury Goltsev
  • Patent number: 11155882
    Abstract: The present invention relates to a rapid detection of microbial-associated nuclease activity with chemically modified nuclease (e.g., endonuclease) substrates, and probes and compositions useful in detection assays.
    Type: Grant
    Filed: February 19, 2020
    Date of Patent: October 26, 2021
    Assignee: UNIVERSITY OF IOWA RESEARCH FOUNDATION
    Inventors: James O. McNamara, Katie R. Flenker, Hyeon Kim, Alexander R. Howswill, Frank J. Hernandez, Mark Behlke, Lingyan Huang, Richard Owczarzy, Elliott Burghardt, Karen Clark
  • Patent number: 11136621
    Abstract: A kit includes a microfabricated device having a top surface defining an array of microwells for receiving a sample comprising at least one cell, and a membrane for applying on the top surface of the microfabricated device to retain the at least one cell in at least one microwell of the array of microwells after the sample is loaded on the microfabricated device.
    Type: Grant
    Filed: December 27, 2018
    Date of Patent: October 5, 2021
    Assignee: GENERAL AUTOMATION LAB TECHNOLOGIES INC.
    Inventors: Paul C. Blainey, Michael W. Seely, Roman Stocker, Karsten Zengler, Scott Conradson, Peter Christey, Alexander Hallock
  • Patent number: 11130948
    Abstract: Aspects of the invention relate to methods, compositions for designing and producing a target nucleic acid. In particular, aspects of the invention relate to the multiplex synthesis of target polynucleotides.
    Type: Grant
    Filed: March 12, 2019
    Date of Patent: September 28, 2021
    Assignee: Gen9, Inc.
    Inventors: Joseph Jacobson, Daniel Schindler, Ishtiaq E. Saaem, Scott S. Lawton, Martin J. Goldberg, Michael E. Hudson, Li-yun A. Kung
  • Patent number: 11111546
    Abstract: A method is provided for detecting a cancer in an individual, the method comprising detection of a deletion in the nucleic acid sequence between residues 10743 and 14125 in mitochondrial DNA by extracting the mitochondrial DNA (mtDNA) from the biological sample obtained from the individual and quantifying the amount of mtDNA in the sample having a deletion in the nucleic acid sequence between approximately residues 10743 and 14125 of the mtDNA genome, and comparing the amount of mtDNA in the sample having the deletion to at least one known reference sample. Kits for conducting the method are also provided.
    Type: Grant
    Filed: June 3, 2019
    Date of Patent: September 7, 2021
    Assignee: MDNA Life Sciences, Inc.
    Inventors: Ryan L. Parr, Robert Thayer, Gabriel D. Dakubo, Jennifer Creed, Kerry Robinson, Andrea Maggrah, Brian Reguly
  • Patent number: 11111526
    Abstract: In the case of using a blocking nucleic acid to prevent non-specific hybridization of a target nucleic acid with a nucleic acid probe, further excellent efficiency of detecting the target nucleic acid is achieved. A buffer composition used in hybridization of a target nucleic acid with a nucleic acid probe, wherein the buffer composition for hybridization contains a blocking nucleic acid comprising a nucleotide sequence complementary to a region comprising at least a non-detection target nucleotide in a non-target nucleic acid, in a concentration of one or more times higher than the concentration of a nucleic acid in a nucleic acid mixture consisting of the target nucleic acid and the non-target nucleic acid.
    Type: Grant
    Filed: August 2, 2017
    Date of Patent: September 7, 2021
    Assignees: Toyo Kohan Co., Ltd., Yamaguchi University
    Inventors: Toshiya Tsuda, Shuichi Kamei, Mitsuyoshi Oba, Hirofumi Yamano, Ryouichi Tsunedomi, Shoichi Hazama, Hiroaki Nagano
  • Patent number: 11104940
    Abstract: A method of screening for at least one biological entity of interest using a microfabricated device which has a top surface defining an array of microwells. A sample is loaded onto the microfabricated device such that at least one microwell of the array of microwells includes at least one cell and an amount of a nutrient. A membrane is applied to the microfabricated device to retain the at least one cell and the nutrient. A plurality of cells is cultured from the at least one cell in the at least one microwell of the array of microwells. The plurality of cells in the at least one microwell of the array of microwells are split into a first portion of the plurality of cells and a second portion of the plurality of cells. The plurality of cells is analyzed to determine a presence or absence of a biological entity of interest.
    Type: Grant
    Filed: December 27, 2018
    Date of Patent: August 31, 2021
    Assignee: GENERAL AUTOMATION LAB TECHNOLOGIES INC.
    Inventors: Paul C. Blainey, Michael W. Seely, Roman Stocker, Karsten Zengler, Scott Conradson, Peter Christey, Alexander Hallock