Patents Examined by Narayan K Bhat
  • Method for concentrating microorganism or extracting nucleic acid using DTBP
    Patent number: 11584924
    Abstract: A method for concentrating microorganisms, includes modifying an object by introducing an amine group into the object (step 1); and contacting a sample including a microorganism and dimethyl 3,3?-dithiobispropionimidate (DTBP) each other on the modified object (step 2), wherein the object is any one of a thin film device, a magnetic bead, a ring resonator, and a nanoparticle.
    Type: Grant
    Filed: August 24, 2017
    Date of Patent: February 21, 2023
    Assignee: INFUSION TECH
    Inventor: Yong Shin
  • Matrix arrays and methods for making same
    Patent number: 11578356
    Abstract: A method of forming a polymer matrix array includes treating a surface within a well of a well array with a surface compound including a surface reactive functional group and a radical-forming distal group; applying an aqueous solution including polymer precursors to the well of the well array; and activating the radical-forming distal group of the surface coupling compound with an initiator and atom transfer radical polymerization (ATRP) catalyst to initiate radical polymerization of the polymer precursors within the well of the well array to form the polymer matrix array.
    Type: Grant
    Filed: July 24, 2020
    Date of Patent: February 14, 2023
    Assignee: LIFE TECHNOLOGIES CORPORATION
    Inventors: David Light, Wolfgang Hinz, Ronald Cicero, Christina Inman, Paul Kenney, Alexander Mastroianni, Roman Rozhkov, Yufang Wang, Jeremy Gray, Marc Glazer, Dmitriy Gremyachinskiy
  • Desorption of nucleic acids
    Patent number: 11566240
    Abstract: In a method for the desorption of nucleic acids from a sample, in order to simplify the desorption of nucleic acids from the sample, a solid phase is repeatedly rinsed with an elution buffer in a microfluidic system, in order to elute nucleic acids bonded to the solid phase from the solid phase in the microfluidic system.
    Type: Grant
    Filed: April 5, 2018
    Date of Patent: January 31, 2023
    Assignee: Robert Bosch GmbH
    Inventors: Jochen Rupp, Christian Dorrer, Juergen Steigert, Bernd Faltin, Karsten Seidl
  • Droplet-based method and apparatus for composite single-cell nucleic acid analysis
    Patent number: 11566279
    Abstract: The present invention generally relates to a combination of molecular barcoding and emulsion-based microfluidics to isolate, lyse, barcode, and prepare nucleic acids from individual cells in a high-throughput manner.
    Type: Grant
    Filed: January 9, 2019
    Date of Patent: January 31, 2023
    Assignees: The Broad Institute, Inc., Massachusetts Institute of Technology, President and Fellows of Harvard College
    Inventors: Aviv Regev, Evan Zane Macosko, Steven Andrew McCarroll, Alexander K. Shalek, Anindita Basu, Christopher B. Ford, Hongkun Park, David A. Weitz
  • Spatially encoded biological assays
    Patent number: 11560587
    Abstract: The present invention provides assays and assay systems for use in spatially encoded biological assays. The invention provides an assay system comprising an assay capable of high levels of multiplexing where reagents are provided to a biological sample in defined spatial patterns; instrumentation capable of controlled delivery of reagents according to the spatial patterns; and a decoding scheme providing a readout that is digital in nature.
    Type: Grant
    Filed: August 1, 2022
    Date of Patent: January 24, 2023
    Assignee: Prognosys Biosciences, Inc.
    Inventor: Mark S. Chee
  • Enzyme stalling method
    Patent number: 11560589
    Abstract: The invention relates to new methods of moving helicases past spacers on polynucleotides and controlling the loading of helicases on polynucleotides. The invention also relates to new methods of characterising target polynucleotides using helicases.
    Type: Grant
    Filed: January 9, 2019
    Date of Patent: January 24, 2023
    Assignee: Oxford Nanopore Technologies PLC
    Inventors: Andrew John Heron, David Antoni Alves, James Anthony Clarke, Marion Louise Crawford, Daniel Ryan Garalde, Graham Hall, Daniel John Turner, James White
  • Application of epigenetic chromosomal interactions in cancer diagnostics
    Patent number: 11560597
    Abstract: The invention provides a method of determining the epigenetic chromosome interactions which are relevant to a prognostic companion epigenetic test for cancer.
    Type: Grant
    Filed: November 30, 2017
    Date of Patent: January 24, 2023
    Assignee: Oxford BioDynamics, PLC
    Inventors: Francis Hector Grand, Aroul Selvam Ramadass, Alexandre Akoulitchev, Ewan Hunter
  • Oligonucleotide-coupled antibodies for single cell or single complex protein measurements
    Patent number: 11549135
    Abstract: Provided herein are compositions and methods for simultaneously measuring target oligonucleotides and protein in single cells. Compositions comprise an antibody-tagged oligonucleotide, including an origin specific barcode handle sequence, a first primer handle sequence, a second primer handle sequence, and a target binding region. The composition may also include an adapter sequence, a unique molecular identifier (UMI), and a poly-A sequence. Methods for simultaneously measuring target oligonucleotides and protein in single cells generally involve delivering a mixture of the composition to a population of cells and encapsulating individual cells in an individual discrete volume comprising PCR primers on a bead.
    Type: Grant
    Filed: September 13, 2019
    Date of Patent: January 10, 2023
    Assignees: THE BROAD INSTITUTE, INC., PRESIDENT AND FELLOWS OF HARVARD COLLEGE
    Inventor: Jesse Engreitz
  • Nucleic acid-functionalized nanoparticles
    Patent number: 11549941
    Abstract: Provided herein are functionalized nanoparticle compositions and methods of using the same. The functionalized nanoparticles provided include a nuclease cleavage site and are, inter alia, useful for the formation of nanoparticle aggregates and detection of nuclease activity through nanoparticle aggregate formation.
    Type: Grant
    Filed: February 12, 2020
    Date of Patent: January 10, 2023
    Assignee: CITY OF HOPE
    Inventors: Jacob Berlin, Pamela Tiet
  • Spatially encoded biological assays
    Patent number: 11549138
    Abstract: The present invention provides assays and assay systems for use in spatially encoded biological assays. The invention provides an assay system comprising an assay capable of high levels of multiplexing where reagents are provided to a biological sample in defined spatial patterns; instrumentation capable of controlled delivery of reagents according to the spatial patterns; and a decoding scheme providing a readout that is digital in nature.
    Type: Grant
    Filed: May 26, 2022
    Date of Patent: January 10, 2023
    Assignee: Prognosys Biosciences, Inc.
    Inventor: Mark S. Chee
  • Sample preparation method
    Patent number: 11542551
    Abstract: The invention relates to an improved method for characterising a template polynucleotide. The method involves using a polymerase to prepare a modified polynucleotide which makes it easier to characterise than the template polynucleotide.
    Type: Grant
    Filed: April 22, 2020
    Date of Patent: January 3, 2023
    Assignee: Oxford Nanopore Technologies PLC
    Inventors: James Anthony Clarke, Marion Louise Crawford, James White
  • Nucleic acid security and authentication
    Patent number: 11535842
    Abstract: Methods and systems for security, authentication, tagging, and tracking using nucleic acid (e.g., deoxyribonucleic acid) molecules encoding information. Unique nucleic acid molecules are efficiently produced from pre-fabricated fragments to quickly produce libraries of nucleic acid molecules encoding encrypted or randomized information. Physical objects or artifacts can be tagged with libraries to authenticate the objects, grant access to secured assets or locations, or track the objects or entities. Chemical methods can be applied to verify authenticity, decrypt, or decode information stored in the libraries.
    Type: Grant
    Filed: October 13, 2020
    Date of Patent: December 27, 2022
    Assignee: CATALOG TECHNOLOGIES, INC.
    Inventors: Nathaniel Roquet, Hyunjun Park, Swapnil P. Bhatia, Devin Leake
  • Methods and compositions for delivery of molecule and complexes to reaction sites
    Patent number: 11530445
    Abstract: The present invention provides methods, compositions, and systems for distributing molecules and complexes into reaction sites. In particular, the methods, compositions, and systems of the present invention result in an active loading of molecules and complexes into reaction sites with improved efficiency over loading by passive diffusion methods alone.
    Type: Grant
    Filed: June 9, 2020
    Date of Patent: December 20, 2022
    Assignee: Pacific Biosciences of California, Inc.
    Inventor: Stephen Turner
  • Nanonozzle device arrays: their preparation and use for macromolecular analysis
    Patent number: 11529630
    Abstract: Constricted nanochannel devices suitable for use in analysis of macromolecular structure, including DNA sequencing, are disclosed. Also disclosed are methods for fabricating such devices and for analyzing macromolecules using such devices.
    Type: Grant
    Filed: June 1, 2020
    Date of Patent: December 20, 2022
    Assignee: Bionano Genomics, Inc.
    Inventors: Han Cao, Parikshit A. Deshpande, Michael David Austin, Michael Boyce-Jacino
  • Spatially encoded biological assays
    Patent number: 11519022
    Abstract: The present invention provides assays and assay systems for use in spatially encoded biological assays. The invention provides an assay system comprising an assay capable of high levels of multiplexing where reagents are provided to a biological sample in defined spatial patterns; instrumentation capable of controlled delivery of reagents according to the spatial patterns; and a decoding scheme providing a readout that is digital in nature.
    Type: Grant
    Filed: June 27, 2022
    Date of Patent: December 6, 2022
    Assignee: Prognosys Biosciences, Inc.
    Inventor: Mark S. Chee
  • Single-cell RNA sequencing using click-chemistry
    Patent number: 11519027
    Abstract: The present disclosure relates to a method of sequencing nascent RNA in a cell. In some embodiments, the nascent RNA is conjugated to DNA using copper-catalyzed azide-alkyne cycloaddition (CuAAC). Methods of the present disclosure can be used to generate genomic libraries of a cell and measure gene expression and enhancer and/or super-enhancer activity.
    Type: Grant
    Filed: March 29, 2019
    Date of Patent: December 6, 2022
    Assignee: Massachusetts Institute of Technology
    Inventors: Phillip A. Sharp, Dig Mahat
  • Single molecule detection or quantification using DNA nanotechnology
    Patent number: 11513076
    Abstract: The present invention relates to a method and a DNA nanostructure for detecting a target structure. In particular, the present invention relates to a DNA nanostructure, which ensures a preferably linear dependence on the number of marker molecules and the measurement signal regardless of the physical arrangement of a plurality of such DNA nanostructures by virtue of the skilled selection of the shape of the DNA nanostructure and the placement of the marker molecules attached to it. The invention additionally relates to the use of said DNA nanostructures and other nanoreporters, preferably in combination with adapters which bind specifically to target molecules, in a method for quantifying a plurality of target molecules, preferably in a simultaneous manner, using a multiplex method.
    Type: Grant
    Filed: June 14, 2017
    Date of Patent: November 29, 2022
    Assignee: LUDWIG-MAXIMILIANS-UNIVERSITÄT MÜNCHEN
    Inventors: Heinrich Grabmayr, Johannes Benedikt Woehrstein
  • Mitigating adverse impacts of detection systems on nucleic acids and other biological analytes
    Patent number: 11499189
    Abstract: A method for sequencing a population of nucleic acids, which includes (a) binding the population of nucleic acids with a fractionally labeled mixture of nucleotides, thereby forming a fractionally labeled population of nucleic acids, wherein the mixture includes nucleotide cognates for a common base type in the templates, and wherein a fraction of the nucleotide cognates for the common base type in the mixture are exogenously labeled nucleotides that produce a signal that is not produced by other nucleotide cognates for the common base type in the mixture; (b) detecting the signal from the fractionally labeled population of nucleic acids; and (c) repeating (a) and (b) using a second mixture of the fractionally labeled nucleotides, wherein the fraction of the exogenously labeled nucleotides is higher in the second mixture.
    Type: Grant
    Filed: February 6, 2020
    Date of Patent: November 15, 2022
    Assignee: PACIFIC BIOSCIENCES OF CALIFORNIA, INC.
    Inventor: Min-Jui Richard Shen
  • Nucleotide sequence generation by barcode bead-colocalization in partitions
    Patent number: 11479816
    Abstract: Comparison of common sequencing reads from sequencing based on partition-based barcoding can be used to improve sequencing results. Increased loading of barcodes per partition can also improve sequencing results.
    Type: Grant
    Filed: August 20, 2019
    Date of Patent: October 25, 2022
    Assignee: Bio-Rad Laboratories, Inc.
    Inventors: Ronald Lebofsky, Andrew Kohlway, Jennifer Chew, Zachary Burkett, Man Cheng
  • Diagnostic applications using nucleic acid fragments
    Patent number: 11479825
    Abstract: Various embodiments are directed to applications (e.g., classification of biological samples) of the analysis of the count, the fragmentation patterns, and size of cell-free nucleic acids, e.g., plasma DNA and serum DNA, including nucleic acids from pathogens, such as viruses. Embodiments of one application can determine if a subject has a particular condition. For example, a method of present disclosure can determine if a subject has cancer or a tumor, or other pathology. Embodiments of another application can be used to assess the stage of a condition, or the progression of a condition over time. For example, a method of the present disclosure may be used to determine a stage of cancer in a subject, or the progression of cancer in a subject over time (e.g., using samples obtained from a subject at different times).
    Type: Grant
    Filed: April 24, 2020
    Date of Patent: October 25, 2022
    Assignees: The Chinese University of Hong Kong, GRAIL, Inc.
    Inventors: Yuk-Ming Dennis Lo, Rossa Wai Kwun Chiu, Kwan Chee Chan, Peiyong Jiang, Wai Kei Lam