Patents Examined by Teresa E Strzelecka
  • Patent number: 11952620
    Abstract: According to one embodiment, a method of quantifying a target nucleic acid containing a first sequence in a sample is provided. The method includes preparing a substrate on which a plurality of detection regions are arranged, forming a reaction field by placing, on the substrate, a reaction liquid containing a sample, a primer set, and an amplification enzyme, maintaining the reaction field in an isothermal amplification condition, detecting a detection signal for each of the detection regions, determining, for each of the plurality of detection regions, whether positive or negative and detecting or quantifying the target nucleic acid based on the number of positive and/or a rise time of each of the positive detection signal.
    Type: Grant
    Filed: November 11, 2020
    Date of Patent: April 9, 2024
    Inventors: Koji Hashimoto, Keiko Ito, Mika Inada
  • Patent number: 11932912
    Abstract: The present specification discloses a method for detecting an aneuploid of a Brassica oleracea plant, including: performing real-time PCR using DNA extracted from a sample derived from a Brassica oleracea plant to be tested as a template and DNA markers specific to each of two or more chromosomes of Brassica oleracea plant; and detecting chromosomal aneuploidy from a relative difference in amplification amount between the obtained DNA markers. According to one embodiment of the present invention, it is possible to simply, accurately, and rapidly detect an off-type (chromosomal aneuploid) that may occur in Brassica oleracea varieties, in a laboratory equipped with a general molecular biological equipment in the course of seed quality control and breeding research.
    Type: Grant
    Filed: August 17, 2018
    Date of Patent: March 19, 2024
    Inventors: Atsushi Izumida, Takao Suzuki, Tetsuya Hiramoto
  • Patent number: 11920188
    Abstract: Provided herein is a method for detecting the presence of clade variants in the COVID-19 virus in a human sample and/or an environmental sample. Samples are processed to obtain total RNA. The RNA is used as a template in a combined reverse transcription and amplification reaction to obtain fluorescent COVID-19 virus amplicons. These amplicons are hybridized on a microarray with nucleic acid probes having sequences that discriminate among the various clade variants. The microarray is imaged to detect the clade variant. Also provided is a method of distinguishing each clade variant from others by generating an intensity distribution profile from the image, which is unique to each of the clade variants.
    Type: Grant
    Filed: May 27, 2021
    Date of Patent: March 5, 2024
    Inventors: Frederick Henry Eggers, Benjamin Alan Katchman, Fushi Wen, Candy Mavis Rivas, Cory Scott Newland, Michael Edward Hogan
  • Patent number: 11913067
    Abstract: A composition for amplifying a polynucleotide is provided that includes a substrate comprising a first region and a second region. A first plurality of capture primers is coupled to the first region of the substrate. A second plurality of capture primers is coupled to the second region of the substrate. The capture primers of the second plurality of capture primers are longer than the capture primers of the first plurality of capture primers. A first plurality of orthogonal capture primers are coupled to the first region of the substrate. A second plurality of orthogonal capture primers are coupled to the second region of the substrate. The orthogonal capture primers of the second plurality of orthogonal capture primers are shorter than the orthogonal capture primers of the first plurality of orthogonal capture primers.
    Type: Grant
    Filed: August 27, 2021
    Date of Patent: February 27, 2024
    Assignees: Illumina, Inc., Illumina Cambridge Limited
    Inventors: Jeffrey Fisher, Jason Betley
  • Patent number: 11898202
    Abstract: The present invention disclosure relates to a next generation DNA sequencing method and use for accurate and massively parallel quantification of one or more nucleic acid targets, for example in large volumes of unpurified sample material. More particularly, the invention is related to a method and a kit comprising probes for detecting and quantifying genetic targets in complex samples. The invention includes one or more target-specific nucleic acid probes per genetic target and a bridge oligo or bridge oligo complex.
    Type: Grant
    Filed: March 3, 2022
    Date of Patent: February 13, 2024
    Assignee: Genomill Health Oy
    Inventors: Juha-Pekka Pursiheimo, Tatu Hirvonen, Manu Tamminen, Anttoni Korkiakoski
  • Patent number: 11898210
    Abstract: The present invention relates to an in vitro method for identifying subjects hosting high amounts of Fim H expressing proteobacteria in their gut, said method comprising the step of detecting the expression of the fimH gene in a stool sample of said subjects.
    Type: Grant
    Filed: October 16, 2018
    Date of Patent: February 13, 2024
    Assignee: ENTEROME
    Inventors: Alessandra Cervino, Christophe Bonny, Jonathan Plassais
  • Patent number: 11891658
    Abstract: The present disclosure provides methods and processes for increasing the efficiency and accuracy of nucleic acid sequencing using techniques such as polymerase chain reaction (PCR). The methods described herein can be used to achieve clonal amplification even with a greater than Poisson distribution of beads and/or nucleic acid templates into an emulsion. A PCR method may comprise generating a partition (e.g., a droplet) comprising at least two beads and/or at least two nucleic acid molecules and generating clonal amplification products corresponding to the nucleic acid molecule, at least a subset of which may be attached to a bead.
    Type: Grant
    Filed: August 5, 2021
    Date of Patent: February 6, 2024
    Inventors: Gilad Almogy, Florian Oberstrass, Omer Barad, Chandan Shee
  • Patent number: 11891654
    Abstract: Provided herein are methods of determining a location of a target nucleic acid in a biological sample.
    Type: Grant
    Filed: February 24, 2021
    Date of Patent: February 6, 2024
    Assignee: 10x Genomics, Inc.
    Inventors: Luigi Jhon Alvarado Martinez, Eswar Prasad Ramachandran Iyer
  • Patent number: 11884973
    Abstract: The present invention is directed to provide new PCR measuring method and device. As one embodiment of the present invention, a DNA detection method for detecting DNA in a droplet being present in oil, the droplet containing the DNA and a fluorescent labeled probe, the fluorescent labeled probe being hybridized to the DNA, the method including: a first step of amplifying the DNA in the droplet by a nucleic acid amplification reaction; and a second step of measuring a melting temperature of the fluorescent labeled probe and the DNA in the droplet is provided.
    Type: Grant
    Filed: November 16, 2017
    Date of Patent: January 30, 2024
    Assignee: Hitachi, Ltd.
    Inventors: Junko Tanaka, Takahide Yokoi, Masao Kamahori, Yoshinobu Kohara
  • Patent number: 11884972
    Abstract: In traditional plant breeding approaches, chemical mutagenesis may be utilized to introduce nucleotide substitutions at random in the genome of a plant, i.e. without possibilities to control the sites of nucleotide changes. Because of genome complexities, the statistical probability is extremely little when it comes to finding a predetermined nucleotide substitution. The present invention, however, demonstrates how a novel, alternative use of digital polymerase chain reaction (dPCR), preferably droplet dPCR (ddPCR), is developed to exploit finding of specific nucleotide substitutions in mutated genes. The entire platform comprises a screening method with a library of mutagenized organisms, digital PCR-based systems and a set-up to propagate and analyze identified, mutated organisms.
    Type: Grant
    Filed: June 23, 2017
    Date of Patent: January 30, 2024
    Assignee: Carlsberg A/S
    Inventors: Toni Wendt, Ole Olsen, Søren Knudsen, Hanne Cecille Thomsen, Birgitte Skadhauge, Magnus Wohlfahrt Rasmussen, Massimiliano Carciofi, Alexander Striebeck
  • Patent number: 11873325
    Abstract: The present invention relates to nucleic acids encoding for proteins correlated with the resistance of the Sm1 locus in wheat and uses of these nucleic acids, in particular for conferring or improving resistance to orange wheat blossom midge (OWBM) in a plant.
    Type: Grant
    Filed: October 10, 2017
    Date of Patent: January 16, 2024
    Inventors: Simon Timothy Berry, Jordi Comadran, Sebastien Specel
  • Patent number: 11866782
    Abstract: This disclosure provides methods and systems for single-cell, multi-omic analysis of target cells without microfluidic devices. The disclosed methods involve the use of template particles to template the formation of monodisperse droplets to generally capture a single target cell from a population of cells in an encapsulation, derive a plurality of distinct mRNA molecules from the single target cell, and quantify the distinct mRNA molecules to generate an expression profile. Nucleic-acid-tagged antibody conjugates are used for simultaneous proteomic analysis along with the gene expression profiling.
    Type: Grant
    Filed: March 16, 2021
    Date of Patent: January 9, 2024
    Assignee: Fluent Biosciences Inc.
    Inventor: Sepehr Kiani
  • Patent number: 11857940
    Abstract: The present disclosure provides a “looping amplification” method to increase the specificity of nucleic acid amplification. This increased specificity facilitates multiplexing to a much higher degree than was previously possible.
    Type: Grant
    Filed: August 10, 2021
    Date of Patent: January 2, 2024
    Assignee: Fluidigm Corporation
    Inventor: Peilin Chen
  • Patent number: 11851720
    Abstract: Provided herein are methods for identifying the presence or absence of a target nucleic acid from a microorganism using direct amplification without a step of extraction of the nucleic acids, but retaining substantially the same specificity and sensitivity of methods assaying extracted nucleic acids.
    Type: Grant
    Filed: April 10, 2020
    Date of Patent: December 26, 2023
    Assignee: Quest Diagnostics Investments LLC
    Inventors: Maurice Exner, Luca Jacky, Yin-Peng Chen, Huong Mai, Michelle M. Tabb, Michael Aye
  • Patent number: 11851699
    Abstract: Disclosed are methods for isothermal nucleic acid amplification and detection.
    Type: Grant
    Filed: February 5, 2021
    Date of Patent: December 26, 2023
    Assignee: Board of Regents, The University of Texas System
    Inventors: Andrew Ellington, Yu Sherry Jiang, Sanchita Bhadra, Bingling Li, Randy Allen Hughes, Yan Du, Jimmy Gollihar
  • Patent number: 11851703
    Abstract: The present invention provides methods, compositions, kits, systems and apparatus that are useful for multiplex PCR of one or more nucleic acids present in a sample. In particular, various target-specific primers are provided that allow for the selective amplification of one or more target sequences. In one aspect, the invention relates to target-specific primers useful for the selective amplification of one or more target sequences associated with cancer or inherited disease. In some aspects, amplified target sequences obtained using the disclosed methods, kits, systems and apparatuses can be used in various downstream processes including nucleic acid sequencing and used to detect the presence of genetic variants.
    Type: Grant
    Filed: October 15, 2020
    Date of Patent: December 26, 2023
    Assignee: Life Technologies Corporation
    Inventors: John Leamon, Mark Andersen, Michael Thornton
  • Patent number: 11845924
    Abstract: Reagents and methods for preparing nucleic acid samples for sequencing are provided. The reagents include multimeric barcoding reagents that comprise barcode regions linked together and a cell-binding moiety. The methods comprise contacting a nucleic acid sample comprising cells with a library of multimeric barcoding reagents, wherein each multimeric barcoding reagent comprises barcode regions linked together, and appending barcode sequences of a first multimeric barcoding reagent to sub-sequences of a target nucleic acid of a first cell, and appending barcode sequences of a second multimeric barcoding reagent to sub-sequences of a target nucleic acid of a second cell. Methods are also provided that comprise steps of internalising multimeric barcoding reagents into cells (e.g. by endocytosis) or exposing multimeric barcoding reagents to target nucleic acids by lysing cells or permeabilizing cell membranes.
    Type: Grant
    Filed: March 17, 2023
    Date of Patent: December 19, 2023
    Assignee: CS Genetics Limited
    Inventor: Lucas Brandon Edelman
  • Patent number: 11840716
    Abstract: Disclosed are methods for amplifying a nucleic acid target region using an amplification oligomer comprising a target-binding segment and a heterologous displacer tag situated 5? to the target-binding segment. Initiation of an amplification reaction from the tagged amplification oligomer produces an amplicon comprising the displacer tag, such that once the complement of the displacer tag has been incorporated into a second amplicon, a displacer oligonucleotide having a sequence substantially corresponding to the displacer tag sequence is used to participate in subsequent rounds of amplification for displacement of an extension product primed from a site within the second amplicon 5? to the displacer priming site. Also disclosed are related kits and reaction mixtures comprising the displacer-tagged amplification oligomer and corresponding displacer oligonucleotide.
    Type: Grant
    Filed: December 28, 2020
    Date of Patent: December 12, 2023
    Inventors: Norman C. Nelson, Margarita Batranina-Kaminsky
  • Patent number: 11840723
    Abstract: Provided herein are qPCR-based methods for quantitatively detecting and differentiating between live and dead pathogenic bacteria such as carbapenem-resistant Enterobacteriaceae (CRE). Also provided herein are simple, fast, and reliable genomic DNA extraction methods with improved efficiency.
    Type: Grant
    Filed: June 11, 2021
    Date of Patent: December 12, 2023
    Assignees: Arizona Board of Regents on behalf of Arizona State University, Mayo Foundation for Medical Education and Research
    Inventors: Joshua LaBaer, Vel Murugan, Merica Vorachitti, Rahul Pannala, Douglas Faigel
  • Patent number: 11840721
    Abstract: The present disclosure generally relates to the field of microbial pathogen detection and identification utilizing genomic sequence recognition.
    Type: Grant
    Filed: April 2, 2018
    Date of Patent: December 12, 2023
    Assignee: HelixBind, Inc.
    Inventors: Alon Singer, Ranjit Prakash, Jork Nolling