Acellular Exponential Or Geometric Amplification (e.g., Pcr, Etc.) Patents (Class 435/91.2)
  • Patent number: 11111532
    Abstract: The invention relates to a new method of characterising a target ribonucleic acid (RNA) involving forming a complementary polynucleotide. The method uses a transmembrane pore.
    Type: Grant
    Filed: October 17, 2014
    Date of Patent: September 7, 2021
    Assignee: Oxford Nanopore Technologies Ltd.
    Inventors: Clive Gavin Brown, Daniel John Turner, James White
  • Patent number: 11079388
    Abstract: An imaging agent comprises (a) at least one target recognition moiety; (b) at least one observable moiety non-transiently bound to the target recognition moiety, and (c) at least one docking moiety bound to the target recognition moiety, wherein the docking moiety is capable of transiently binding at least one observable moiety. In some embodiments, the at least one target recognition moiety is an antibody or antigen binding fragment thereof.
    Type: Grant
    Filed: April 25, 2017
    Date of Patent: August 3, 2021
    Assignee: Ultivue, Inc.
    Inventor: Xi Chen
  • Patent number: 11071963
    Abstract: Methods and apparatus relate to the synthesis of high fidelity polynucleotides and to the reduction of sequence errors generated during synthesis of nucleic acids on a solid support. Specifically, design of support-bound template oligonucleotides is disclosed. Assembly methods include cycles of annealing, stringent wash and extension of polynucleotides comprising a sequence region complementary to immobilized template oligonucleotides. The error free synthetic nucleic acids generated therefrom can be used for a variety of applications, including synthesis of biofuels and value-added pharmaceutical products.
    Type: Grant
    Filed: March 21, 2018
    Date of Patent: July 27, 2021
    Assignee: Gen9, Inc.
    Inventors: Joseph Jacobson, Larry Li-Yang Chu
  • Patent number: 11060131
    Abstract: A method and kit for the capture and purification of specific nucleic acids from a sample with affinity capture probes on a solid support and for the replication of said nucleic acids with a strand displacing polymerase, whereby a second primer complementary to a sequence in each of the target nucleic acids distinct from that bound by capture probes is also bound to the nucleic acid targets, and extension of one of the primers on each target effects the separation of the copied nucleic acid strands from the solid support. Incorporation of universal nucleic acid sequences during their replication enables the simultaneous and highly specific amplification of multiple nucleic acid target sequences with minimal production of artifacts.
    Type: Grant
    Filed: March 29, 2016
    Date of Patent: July 13, 2021
    Assignee: ANGLE EUROPE LIMITED
    Inventors: David Frederick Englert, Kelly Kai Yin Seto
  • Patent number: 11060152
    Abstract: A method of diagnosing or predicting a bladder cancer, or a risk of a developing a bladder cancer in a subject is provided, which method includes the detection of specific mutations in the FGFR3 gene in a first biological sample; and the measure of the degree of methylation of target genes in a biological sample obtained from the subject in a second biological sample.
    Type: Grant
    Filed: October 29, 2018
    Date of Patent: July 13, 2021
    Assignee: ONCODIAG
    Inventor: Jean-Pierre Roperch
  • Patent number: 11028451
    Abstract: Methods for the rapid detection of the presence or absence of Mycobacterium tuberculosis (MTB) and other members of the MTB-complex in a biological or non-biological sample are described. The methods can include performing an amplifying step, a hybridizing step, and a detecting step. Furthermore, primers, probes targeting the esxJ gene, along with kits are provided that are designed for the detection of MTB.
    Type: Grant
    Filed: April 12, 2018
    Date of Patent: June 8, 2021
    Assignee: Roche Molecular Systems, Inc.
    Inventor: Jenny A. Johnson
  • Patent number: 11027282
    Abstract: The present invention provides a system for receiving biological sequence information and activating the synthesis of a biological entity. The system has a receiving unit for receiving a signal encoding biological sequence information transmitted from a transmitting unit. The transmitting unit can be present at a remote location from the receiving unit. The system also has an assembly unit connected to the receiving unit, and the assembly unit assembles the biological entity according to the biological sequence information. Thus, according to the present invention biological sequence information can be digitally transmitted to a remote location and the information converted into a biological entity, for example a protein useful as a vaccine, immediately upon being received by the receiving unit and without further human intervention after preparing the system for receipt of the information.
    Type: Grant
    Filed: July 19, 2017
    Date of Patent: June 8, 2021
    Assignee: Codex DNA, Inc.
    Inventors: J. Craig Venter, Daniel Gibson, John E. Gill
  • Patent number: 11008567
    Abstract: Transposomes and oligonucleotide replacement methods to make DNA libraries that have distinct 5? and 3? tags, and to make directional libraries that are enriched for a desired strand.
    Type: Grant
    Filed: April 1, 2019
    Date of Patent: May 18, 2021
    Assignee: Illumina, Inc.
    Inventors: Igor Goryshin, Bradley Baas, Ramesh Vaidyanathan, Mark Maffitt
  • Patent number: 10999285
    Abstract: Sharing data is disclosed. In some cases, sharing data includes receiving a request to share data from a first account to a second account, receiving an indication of a plurality of first account profiles associated with the first account to share with the second account, and establishing sharing from the plurality of first account profiles to the second account, wherein sharing comprises the second account having read access to a subset of nonpublic data associated with the plurality of first account profiles.
    Type: Grant
    Filed: October 23, 2020
    Date of Patent: May 4, 2021
    Assignee: 23andMe, Inc.
    Inventors: Brian Lee Hawthorne, Oleksiy Khomenko, Jeffrey Mellen, Marcela Miyazawa, Michael Polcari, Jack Tihon, Alexander Wong, Anne Wojcicki, Linda Avey
  • Patent number: 10988797
    Abstract: Embodiments provided herein relate to methods and compositions for preparing nucleic acid libraries. Some embodiments include preparing libraries from nucleic acids obtained from degraded samples, such as ancient samples and fixed samples.
    Type: Grant
    Filed: December 4, 2019
    Date of Patent: April 27, 2021
    Assignee: Illumina, Inc.
    Inventors: Raquel Maria Sanches-Kuiper, Vincent Peter Smith, Sean Humphray
  • Patent number: 10982247
    Abstract: This invention relates to mutant DNA polymerases having an enhanced template discrimination activity compared with the corresponding unmodified DNA polymerase counterparts, wherein the amino acid sequence of the mutant DNA polymerase includes at least one substitution at residue positions structurally and functionally homologous or orthologous positions 783 or 784 of an unmodified Taq DNA polymerase.
    Type: Grant
    Filed: December 21, 2016
    Date of Patent: April 20, 2021
    Assignee: INTEGRATED DNA TECHNOLOGIES, INC.
    Inventors: Mark Aaron Behlke, Joseph A. Walder, Richard Owczarzy, Scott D. Rose, Joseph R. Dobosy, Susan M. Rupp
  • Patent number: 10975430
    Abstract: The present invention is concerned with compositions and methods for improving the rate of correct sample identification in indexed nucleic acid library preparations for multiplex next generation sequencing by blocking the 3? ends of pooled indexed polynucleotides from multiple samples prior to amplification and sequencing.
    Type: Grant
    Filed: April 23, 2018
    Date of Patent: April 13, 2021
    Assignee: Illumina Cambridge Limited
    Inventors: Vincent Peter Smith, Claire Bevis-Mott, Jonathan Mark Boutell
  • Patent number: 10954558
    Abstract: The present disclosure provides methods and systems for amplifying and analyzing nucleic acid samples. The present disclosure provides methods for preparing cDNA and/or DNA molecules and cDNA and/or DNA libraries using modified reverse transcriptases.
    Type: Grant
    Filed: October 23, 2018
    Date of Patent: March 23, 2021
    Assignee: Bio-Rad Laboratories, Inc.
    Inventors: Arkadiusz Bibillo, Pranav Patel
  • Patent number: 10954553
    Abstract: The present disclosure provides novel primers and method for the detection of specific nucleic acid sequences. The primers and methods provided herein are useful in a wide variety of molecular biology applications and are particularly useful in allele-specific PCR.
    Type: Grant
    Filed: July 12, 2016
    Date of Patent: March 23, 2021
    Assignee: LIFE TECHNOLOGIES CORPORATION
    Inventors: Shoulian Dong, Chunmei Liu
  • Patent number: 10954551
    Abstract: Methods, systems, and reagents for real-time single molecule sequencing of nucleic acids, particularly long DNA molecules, is described. Preferably, such methods and systems combine FRET (Förster Resonance Energy Transfer)-based proximity sensing of labeled nucleotides in or near a DNA polymerase's active site with FRET-based monitoring of the conformational changes in the polymerase that occur during nucleotide incorporation.
    Type: Grant
    Filed: March 7, 2018
    Date of Patent: March 23, 2021
    Assignee: Singular Genomics Systems, Inc.
    Inventor: Eli Glezer
  • Patent number: 10947585
    Abstract: Disclosed is a nucleic acid amplification method. The method comprises: performing a first nucleic acid amplification using a target nucleic acid contained in a sample as a template; and performing a second nucleic acid amplification using the amplification product produced in the first nucleic acid amplification step as a template. In the first nucleic acid amplification, a DNA polymerase that selectively amplifies a nucleic acid not comprising a uracil base is used to produce an amplification product that does not comprise a uracil base. In the second nucleic acid amplification, (i) dUTP and/or a primer comprising a uracil base, and (ii) a DNA polymerase capable of amplifying a nucleic acid comprising a uracil base are used to produce an amplification product that comprises a uracil base.
    Type: Grant
    Filed: February 21, 2018
    Date of Patent: March 16, 2021
    Assignee: SYSMEX CORPORATION
    Inventors: Michitaka Notoya, Shuji Yamashita, Mika Yoshimura, Yutaka Maeda
  • Patent number: 10941423
    Abstract: Described is a method for the production isoamyl alcohol (3-methylbutan-1-ol) comprising the enzymatic conversion of 3-methylbutyryl-CoA (isovaleryl-CoA) into isoamyl alcohol comprising: (a) two enzymatic steps comprising (i) first the enzymatic conversion of 3-methylbutyryl-CoA into 3-methylbutyraldehyde (3-methylbutanal or isovaleraldehyde); and (ii) then enzymatically converting the thus obtained 3-methylbutyraldehyde into said isoamyl alcohol; or (b) a single enzymatic reaction in which 3-methylbutyryl-CoA is directly converted into isoamyl alcohol by making use of an alcohol-forming short chain acyl-CoA dehydrogenase/fatty acyl-CoA reductase or an alcohol-forming fatty acyl-CoA reductase (long-chain acyl-CoA:NADPH reductase) (EC 1.2.1.84). Further, described is the above method wherein the 3-methylbutyryl-CoA can be provided by the enzymatic conversion of 3-methylcrotonyl-CoA into said 3-methylbutyryl-CoA.
    Type: Grant
    Filed: June 23, 2016
    Date of Patent: March 9, 2021
    Assignee: Global Bioenergies
    Inventors: Maria Anissimova, Mathieu Allard
  • Patent number: 10907148
    Abstract: The present invention relates to a method and kit for analyte detection. More precisely the invention relates to a method of detecting an analyte, comprising storing short single stranded nucleic acids (10-100 nt), such as aptamers and micro RNA, on a solid support at ambient temperature; and subsequent amplification of said nucleic acids for detection of analyte(s).
    Type: Grant
    Filed: August 18, 2016
    Date of Patent: February 2, 2021
    Assignee: Global Life Sciences Solutions Operations UK Ltd
    Inventors: Jeffrey Kenneth Horton, Peter James Tatnell
  • Patent number: 10908157
    Abstract: The present disclosure is directed to a kit for the detection of an analyte of interest in a sample comprising, in one or more vials, containers, or compartments, a. a surface comprising (i) a capture reagent for the analyte, said capture reagent bound to the surface, and (ii) an anchoring reagent bound to an anchoring oligonucleotide sequence, said anchoring reagent bound to the surface, b. a first detection reagent for the analyte that is linked to a first nucleic acid probe, wherein the first nucleic acid probe comprises an extended sequence that is complementary to the anchoring oligonucleotide sequence and c. a second detection reagent for the analyte that is linked to a second nucleic acid probe.
    Type: Grant
    Filed: February 23, 2017
    Date of Patent: February 2, 2021
    Assignee: Meso Scale Technologies, LLC.
    Inventors: Anahit Aghvanyan, Eli N. Glezer, John Kenten, George Sigal, Martin Stengelin
  • Patent number: 10894254
    Abstract: A portable pathogen analysis system (PPAS) designed to detect microbial pathogens at the point-of-sample collection. The system comprises a concentration tube used for the concentration of microbes in large volumes of water samples using super absorbent polymer (SAP) beads and a hand-powered centrifuge; and a processing component, which functions as a portable lab-on-a-disc droplet digital nucleic acid amplification system, which integrates DNA extraction, nucleic acid amplification, and post-amplicon analysis in a single unit. The present invention provides a fast, cost-effective, and user-friendly solution for microbial water quality analysis in low-resource settings.
    Type: Grant
    Filed: October 5, 2018
    Date of Patent: January 19, 2021
    Assignees: THE REGENTS OF THE UNIVERSITY OF CALIFORNIA, CALIFORNIA INSTITUTE OF TECHNOLOGY
    Inventors: Sunny Jiang, Hamsa Gowda, Xiao Huang, Xunyi Wu, Marc Madou, Michael R. Hoffmann
  • Patent number: 10882045
    Abstract: Examples include polymerase chain reaction (PCR) devices. Example PCR devices comprise a fluid input, ejection nozzles, and a set of microfluidic channels that fluidly connect the fluid input and the ejection nozzles. Each microfluidic channel comprises a reaction chamber, and examples further comprise at least one heating element, where the at least one heating element is positioned in the reaction chamber of each microfluidic channel. The at least one heating element is to heat fluid in the reaction chamber of each fluid channel. The device may eject fluid via the ejection nozzles.
    Type: Grant
    Filed: January 8, 2016
    Date of Patent: January 5, 2021
    Assignee: Hewlett-Packard Development Company, L.P.
    Inventors: Erik D. Torniainen, Alexander Govyadinov, Pavel Kornilovich, David P. Markel
  • Patent number: 10876152
    Abstract: The present disclosure provides a system and method for the detection of rare mutations and copy number variations in cell free polynucleotides. Generally, the systems and methods comprise sample preparation, or the extraction and isolation of cell free polynucleotide sequences from a bodily fluid; subsequent sequencing of cell free polynucleotides by techniques known in the art; and application of bioinformatics tools to detect rare mutations and copy number variations as compared to a reference. The systems and methods also may contain a database or collection of different rare mutations or copy number variation profiles of different diseases, to be used as additional references in aiding detection of rare mutations, copy number variation profiling or general genetic profiling of a disease.
    Type: Grant
    Filed: April 19, 2019
    Date of Patent: December 29, 2020
    Assignee: GUARDANT HEALTH, INC.
    Inventors: AmirAli Talasaz, Stefanie Ann Ward Mortimer
  • Patent number: 10870891
    Abstract: The present disclosure relates to a rapid diagnostic test system that includes the prospective collection of whole blood, preservation of circulating nucleic acids at ambient temperature, and the reproducible detection of nucleic acids including DNA and mRNA (including fusion transcripts and differentially expressed transcripts) by different genomic methodologies.
    Type: Grant
    Filed: January 5, 2018
    Date of Patent: December 22, 2020
    Assignee: BIODESIX, INC.
    Inventors: Hestia Mellert, Leisa Jackson, Gary A. Pestano
  • Patent number: 10870399
    Abstract: The invention relates to a sensor arrangement for a motor vehicle, with a pane, a sensor housing, and an optical sensor, wherein the sensor housing is arranged on one side of the pane such that between the sensor housing and the pane, a gap is formed, in which the optical sensor is arranged. To allow for a deicing of the pane in an area of the sensor housing in a particularly simple and thus cost-effective manner, it is provided that between the sensor housing and the side of the pane, a heat conducting element is arranged to conduct heat from outside the sensor housing in between the sensor housing and the pane.
    Type: Grant
    Filed: April 25, 2018
    Date of Patent: December 22, 2020
    Assignee: AUDI AG
    Inventor: Tobias Brok
  • Patent number: 10865396
    Abstract: The invention provides compositions and methods for modifying the 3?-terminal ends of nucleic acids using DNA polymerase ? terminal transferase activity.
    Type: Grant
    Filed: October 28, 2016
    Date of Patent: December 15, 2020
    Assignee: Temple University—Of The Commonwealth System of Higher Education
    Inventors: Richard T. Pomerantz, Tatiana Kent
  • Patent number: 10865445
    Abstract: In one aspect, the invention provides a method of screening a human subject to determine if said subject has a genetic predisposition to develop, or is suffering from Facioscapulohumeral Dystrophy (FSHD), said method comprising: (a) providing a biological sample comprising genomic DNA from the subject; and (b) analyzing the portion of the genomic DNA in the sample corresponding to the distal D4Z4-pLAM region on chromosome 4 and determining the presence or absence of a polymorphism resulting in a functional polyadenylation sequence operationally linked to exon 3 of the DUX4 gene, wherein a determination of the absence of a functional polyadenylation sequence operationally linked to exon 3 of the DUX4 gene indicates that the subject does not have a genetic predisposition to develop, and is not suffering from FSHD, and/or wherein a determination of the presence of a functional polyadenylation sequence operationally linked to exon 3 of the DUX4 gene indicates that the subject has a genetic predisposition to devel
    Type: Grant
    Filed: August 18, 2011
    Date of Patent: December 15, 2020
    Assignees: Fred Hutchinson Cancer Research Center, University of Rochester, Leiden University Medical Center
    Inventors: Silvere M. van der Maarel, Stephen J. Tapscott, Rabi Tawil, Richard J. L. F. Lemmers, Linda Geng, Lauren Snider
  • Patent number: 10857666
    Abstract: A hermetically sealed multi-axis articulated arm apparatus for use within a sealable isolator chamber comprises a rotational shaft that passes through an opening in the chamber, a sealing member disposed within the chamber for sealing the shaft to an inner surface of the chamber, a plurality of interconnected hermetically sealed arm segments, operably attached to the linear motion shaft; an end effector operably attached to a terminal arm segment among the plurality of arm segments, and at least one fully enclosed drive system for driving and controlling the shaft and the plurality of arm segments. The linear motion shaft may have a sealing member in the form of a bellows. The materials for the parts of the apparatus exposed to the atmosphere of the chamber are compatible with an aseptic and cleanable environment and the surfaces of the arm segments are shaped to avoid pooling of contaminants.
    Type: Grant
    Filed: December 17, 2018
    Date of Patent: December 8, 2020
    Assignee: VANRX PHARMASYSTEMS INC.
    Inventors: Christopher A. Procyshyn, Jeroen Immerzeel, Steve Sang Joon Park, Ross M. Gold
  • Patent number: 10858699
    Abstract: The invention describes composition and methods of use for novel hairpin blocked-cleavable primers. In one embodiment unblocking occurs through action of RNase H2. The method improves the specificity of PCR and reduces primer dimer events, enabling higher level multiplex reactions. Additionally, the invention protects RNA-containing primers from attack by single-strand RNases.
    Type: Grant
    Filed: August 29, 2017
    Date of Patent: December 8, 2020
    Assignee: Integrated DNA Technologies, Inc.
    Inventors: Joseph A. Walder, Joseph Dobosy, Mark Aaron Behlke
  • Patent number: 10841312
    Abstract: Sharing data is disclosed. In some cases, sharing data includes receiving a request to share data from a first account to a second account, receiving an indication of a plurality of first account profiles associated with the first account to share with the second account, and establishing sharing from the plurality of first account profiles to the second account, wherein sharing comprises the second account having read access to a subset of nonpublic data associated with the plurality of first account profiles.
    Type: Grant
    Filed: December 20, 2019
    Date of Patent: November 17, 2020
    Assignee: 23andMe, Inc.
    Inventors: Brian Lee Hawthorne, Oleksiy Khomenko, Jeffrey Mellen, Marcela Miyazawa, Michael Polcari, Jack Tihon, Alexander Wong, Anne Wojcicki, Linda Avey
  • Patent number: 10837049
    Abstract: The present invention regards a variety of methods and compositions for whole genome amplification and whole transcriptome amplification. In a particular aspect of the present invention, there is a method of amplifying a genome comprising a library generation step followed by a library amplification step. In specific embodiments, the library generating step utilizes specific primer mixtures and a DNA polymerase, wherein the specific primer mixtures are designed to eliminate ability to self-hybridize and/or hybridize to other primers within a mixture but efficiently and frequently prime nucleic acid templates.
    Type: Grant
    Filed: July 22, 2016
    Date of Patent: November 17, 2020
    Assignee: Takara Bio USA, Inc.
    Inventors: Emmanuel Kamberov, Tong Sun, Eric Bruening, Jonathon H. Pinter, Irina Sleptsova, Takao Kurihara, Vladimir L. Makarov
  • Patent number: 10829823
    Abstract: This invention relates to compositions and methods for the differential detection of multiple viruses using a one-step assay. The viruses to be detected include Zika, West Nile, dengue (genotype 1-4) and chikungunya viruses. In particular, the invention relates to a method of and assay for differential detection of the viruses using specific primers and probes designed to detect and differentiate between the viruses.
    Type: Grant
    Filed: March 17, 2017
    Date of Patent: November 10, 2020
    Assignee: THE TRUSTEES OF COLUMBIA UNIVERSITY IN THE CITY OF NEW YORK
    Inventors: Walter Ian Lipkin, Nischay Mishra, Thomas Briese, Rafal Tokarz
  • Patent number: 10808286
    Abstract: A method of detecting a predisposition to, or the incidence of, cancer in a sample comprises detecting an epigenetic change in at least one gene selected from an NDRG4/NDRG2 subfamily gene, GATA4, OSMR, GATA5, SFRP1, ADAM23, JPH3, SFRP2, APC, MGMT, TFPI2, BNIP3, FOXE1, SYNE1, SOX17, PHACTR3 and JAM3, wherein detection of the epigenetic change is indicative of a predisposition to, or the incidence of, cancer. Also described are pharmacogenetic methods for determining suitable treatment regimens for cancer and methods for treating cancer patients, based around selection of the patients according to the methods of the invention. The present invention is also concerned with improved methods of collecting, processing and analyzing samples, in particular body fluid samples. These methods may be useful in diagnosing, staging or otherwise characterizing various diseases.
    Type: Grant
    Filed: May 4, 2018
    Date of Patent: October 20, 2020
    Assignee: EXACT SCIENCES DEVELOPMENT COMPANY, LLC
    Inventors: Manon Van Engeland, Manon Adriaan De Bruine, Arjan Griffioen, Joost Louwagie, Katja Bierau, Gontran Brichard, Gaetan Otto, Maarten Penning
  • Patent number: 10781443
    Abstract: Provided are methods of adding adapters to nucleic acids. The methods include combining in a reaction mixture a template ribonucleic acid (RNA), a template switch oligonucleotide including a 3? hybridization domain and a sequencing platform adapter construct, a polymerase, and dNTPs. The reaction mixture components are combined under conditions sufficient to produce a product nucleic acid that includes the template RNA and the template switch oligonucleotide each hybridized to adjacent regions of a single product nucleic acid that includes a region polymerized from the dNTPs by the polymerase. Aspects of the invention further include compositions and kits.
    Type: Grant
    Filed: March 24, 2017
    Date of Patent: September 22, 2020
    Assignee: Takara Bio USA, Inc.
    Inventors: Craig Betts, Steve Oh, George G. Jokhadze, Nathalie Bolduc
  • Patent number: 10767208
    Abstract: The invention provides compositions and methods for making closed nucleic acid structures in which one or both strands are continuous. The closed nucleic acid structures can be used as sequencing templates among other applications.
    Type: Grant
    Filed: September 6, 2012
    Date of Patent: September 8, 2020
    Assignee: GEN-PROBE INCORPORATED
    Inventors: Norman C. Nelson, Jijumon Chelliserry, Steven T. Brentano, Dmitry Lyakhov, Matthew C. Friedenberg, Anne-Laure Shapiro
  • Patent number: 10752944
    Abstract: The invention provides methods of forming a circular template for sequencing a target nucleic acid. The circular template is generated by amplification of a segment of the target nucleic acid with chimeric primers with complementary 5? ends. The circular template has a single nick or gap providing a site for initiation of template-directed extension for sequence analysis. Sequencing of a single template generates reads of alternating segments of the same strand of the target nucleic spaced by primer segments. The different reads of the same strand of the target nucleic acid can be compiled to generate a consensus sequence. Because only one strand of the target nucleic acid is sequenced per reaction, the present method avoids errors introduced by unwittingly combining sequences of both strands of a heteroduplex PCR product.
    Type: Grant
    Filed: September 6, 2012
    Date of Patent: August 25, 2020
    Assignee: GEN-PROBE INCORPORATED
    Inventors: Steven T. Brentano, Dmitry Lyakhov, Matthew C. Friedenberg, Anne-Laure Shapiro
  • Patent number: 10752905
    Abstract: This document provides methods and materials for assembling nucleic acid constructs (e.g., TALENs). For example, methods for assembling TALEs that are rapid, flexible for use in many cloning scaffolds (such as common nuclease and nickase backbones), and achievable with standard molecular biology laboratory tools, thereby making TALEs a more accessible genome system, are provided.
    Type: Grant
    Filed: January 20, 2016
    Date of Patent: August 25, 2020
    Assignee: MAYO FOUNDATION FOR MEDICAL EDUCATION AND RESEARCH
    Inventors: Stephen C. Ekker, Karl J. Clark, Jarryd M. Campbell, Chun Hang Alvin Ma
  • Patent number: 10752947
    Abstract: Apparatus and methods to identify nucleotides of a DNA strand. The method includes exposing the DNA strand to a first dye or peptide, attaching the first dye or peptide to a first type of nucleotide (A,T,C,G) of the DNA strand, the first dye or peptide changing a conductance of the first type of nucleotide to which the first dye or peptide is attached, and measuring a tunneling current signal for all nucleotides of the DNA strand, the changed conductance of the first type of nucleotide providing amplified tunneling current discrimination of the nucleotides of the DNA strand.
    Type: Grant
    Filed: February 1, 2018
    Date of Patent: August 25, 2020
    Assignee: SEAGATE TECHNOLOGY LLC
    Inventors: Thomas Young Chang, Philip L. Steiner, Kim Yang Lee, David S. Kuo
  • Patent number: 10738357
    Abstract: Provided herein is a method for analyzing polynucleotides such as genomic DNA. In certain embodiments, the method comprises: (a) treating chromatin isolated from a population of cells with an insertional enzyme complex to produce tagged fragments of genomic DNA; (b) sequencing a portion of the tagged fragments to produce a plurality of sequence reads; and (c) making an epigenetic map of a region of the genome of the cells by mapping information obtained from the sequence reads to the region. A kit for performing the method is also provided.
    Type: Grant
    Filed: May 21, 2019
    Date of Patent: August 11, 2020
    Assignee: The Board of Trustees of the Leland Stanford Junior University
    Inventors: Paul Giresi, Jason D. Buenrostro, Howard Y. Chang, William J. Greenleaf
  • Patent number: 10731152
    Abstract: A composition and method for controlled in vitro fragmentation of nucleic acids. A transposase forms catalytically active complexes with a modified transposon end that contains within its end sequence degenerate, apurinic/apyrimidinic sites, nicks, or nucleotide gaps, to fragment or shear a target nucleic acid sample in a controlled process. This method yields desired average nucleic acid fragment sizes. The inventive composition and method may be applied for generation of DNA fragments containing shortened transposon end sequences to facilitate subsequent reactions, for production of asymmetrically tailed DNA fragments, etc.
    Type: Grant
    Filed: November 17, 2015
    Date of Patent: August 4, 2020
    Assignee: THERMO FISHER SCIENTIFIC BALTICS UAB
    Inventors: Mindaugas Ukanis, Arvydas Lubys, Romas Tamo{hacek over (s)}evicius, Ervinas Gaidamauskas
  • Patent number: 10724085
    Abstract: Compositions, reaction mixtures, and methods for performing an amplification reaction, including multiplex amplification reaction, wherein the method comprises using one or more amplification oligomer complexes comprising linked first and second amplification oligomer members. In one aspect, the amplification oligomer complex is hybridized to a target nucleic acid, the target nucleic acid with hybridized amplification oligomer complex is then captured, and other components are washed away. Target sequences of the target nucleic acids are pre-amplified to generate a first amplification product. The first amplification product is amplified in one or more secondary amplification reactions to generate second amplification products.
    Type: Grant
    Filed: February 22, 2018
    Date of Patent: July 28, 2020
    Inventors: Steven T. Brentano, Dmitry Lyakhov, Norman C. Nelson, James D. Carlson, Michael M. Becker, Lyle J. Arnold, Jr.
  • Patent number: 10710069
    Abstract: The present technology provides for a microfluidic substrate configured to carry out PCR on a number of polynucleotide-containing samples in parallel. The substrate can be a single-layer substrate in a microfluidic cartridge. Also provided are a method of making a microfluidic cartridge comprising such a substrate. Still further disclosed are a microfluidic valve suitable for use in isolating a PCR chamber in a microfluidic substrate, and a method of making such a valve.
    Type: Grant
    Filed: June 27, 2014
    Date of Patent: July 14, 2020
    Assignee: HandyLab, Inc.
    Inventors: Kalyan Handique, Gene Parunak, Cecelia Haley
  • Patent number: 10710046
    Abstract: The invention relates to methods of generating templates for a nucleic acid sequencing reaction which comprise: providing at least one double-stranded nucleic acid molecule, wherein both strands of the double-stranded nucleic acid molecule are attached to a solid support at the 5? end, cleaving one or both strands of the double-stranded nucleic acid molecule, and subjecting the cleaved strand(s) to denaturing conditions to remove the portion of the cleaved strand(s) not attached to the solid support, thereby generating a partially or substantially single-stranded template for a nucleic acid sequencing reaction.
    Type: Grant
    Filed: June 18, 2018
    Date of Patent: July 14, 2020
    Assignee: Illumina Cambridge Limited
    Inventors: Xiaohai Liu, John Milton, Geoffrey Paul Smith, Colin Lloyd Barnes, Isabelle Rasolonjatovo, Roberto Rigatti, Xiaolin Wu, Tobias William Barr Ost, Graham John Worsley, David James Earnshaw, Gerardo Turcatti, Anthony Romieu
  • Patent number: 10689681
    Abstract: The present invention relates to a recombinant microorganism comprising one or more nucleotide sequence(s) encoding: a polypeptide having ent-copalyl pyrophosphate synthase activity; a polypeptide having ent-Kaurene synthase activity; a polypeptide having ent-Kaurene oxidase activity; and a polypeptide having kaurenoic acid 13-hydroxylase activity, whereby expression of the nucleotide sequence(s) confer(s) on the microorganism the ability to produce at least steviol. The recombinant microorganism may also be capable of expressing one or more UDP-glucosyltransferases such that the microorganism is capable of producing one or more steviol glycosides.
    Type: Grant
    Filed: June 2, 2014
    Date of Patent: June 23, 2020
    Assignee: DSM IP ASSETS B.V.
    Inventors: Viktor Marius Boer, Erwin Suir
  • Patent number: 10655169
    Abstract: Methods are provided for nucleic acid analysis wherein a target nucleic acid is mixed with a dsDNA binding dye to form a mixture. Optionally, an unlabeled probe is included in the mixture. A melting curve is generated for the target nucleic acid by measuring fluorescence from the dsDNA binding dye as the mixture is heated. Dyes for use in nucleic acid analysis and methods for making dyes are also provided.
    Type: Grant
    Filed: April 19, 2017
    Date of Patent: May 19, 2020
    Assignees: University of Utah Research Foundation, Biofire Defense, LLC
    Inventors: Luming Zhou, Carl T. Wittwer, Philip Seth Bernard, Virginie Dujols
  • Patent number: 10633698
    Abstract: Disclosed are a composition for PCR including polyethylene glycol-engrafted nano-sized graphene oxide (PEG-nGO), the composition for PCR being capable of increasing the efficiency and specificity of PCR and shortening PCR time, and a PCR method using the same.
    Type: Grant
    Filed: December 1, 2017
    Date of Patent: April 28, 2020
    Assignee: KONKUK UNIVERSITY INDUSTRIAL COOPERATION CORP
    Inventors: Dong Eun Kim, Hyo Ryoung Kim, Ah Ruem Baek
  • Patent number: 10620123
    Abstract: The disclosure relates to a fluorescence detection instrument, including a base, a heating module, a detecting module, an illumination module, and an actuation module. The heating module, the detecting module, and the actuation module are disposed on the base. The heating module includes plural heating holders, wherein each of the plural heating holders is adapted to accommodate a light-transmissive reaction container adapted to contain a fluorescent reaction mixture with at least one targeted fluorescent probe respectively. The detecting module is configured with the heating module to form plural detection channels, wherein the plural heating holders are located at the plural detection channels respectively. The actuation module is connected with the illumination module and adapted to drive the illumination module to move to at least one predetermined position to selectively match at least one combination of the heating holder on the corresponding detection channel.
    Type: Grant
    Filed: March 1, 2018
    Date of Patent: April 14, 2020
    Assignee: DELTA ELECTRONICS INT'L (SINGAPORE) PTE LTD
    Inventors: Bo Ma, Jei-Yin Yiu, Song-Bin Huang, Po-Yao Huang, Chun-Jung Li, Yu-Kai Kao
  • Patent number: 10612101
    Abstract: Methods for the rapid detection of the presence or absence of Mycoplasma genitalium (MG) in a biological or non-biological sample are described. The methods can include performing an amplifying step, a hybridizing step, and a detecting step. Furthermore, primers, probes targeting the target MG gene, along with kits are provided that are designed for the detection of MG.
    Type: Grant
    Filed: May 22, 2017
    Date of Patent: April 7, 2020
    Assignee: Roche Molecular Systems, Inc.
    Inventors: Jody Harris, Kalyani Mangipudi
  • Patent number: 10612854
    Abstract: A sample holder for annealing apparatus and electrically assisted annealing apparatus using the same are provided. The sample holder includes a heat conductive shell, high thermal conductive and electrical insulation blocks, first and second electrodes. The heat conductive shell includes a base frame and a top cover. The high thermal conductive and electrical insulation blocks are adjacent to the base frame and the top cover, respectively, and a sample pallet is sandwiched therebetween. Length and width of the sample pallet is smaller than that of the high thermal conductive and electrical insulation blocks. The first and the second electrodes are fixed to two sides of the sample pallet, and are connected to electrifying wire respectively. Thickness of the first and the second electrodes is smaller than that of the sample pallet, while the width of the first and the second electrodes is longer than that of the sample pallet.
    Type: Grant
    Filed: November 19, 2014
    Date of Patent: April 7, 2020
    Assignee: Industrial Technology Research Institute
    Inventors: Hsu-Shen Chu, Chien-Neng Liao, Yao-Hsiang Chen
  • Patent number: 10604798
    Abstract: A heating mechanism for use in DNA applications such as DNA amplification, extraction and sterilization is provided. Nanoparticles having photo-thermal properties are put in contact with a reaction mixture and irradiated with an activation light beam to activate these photo-thermal properties, thereby releasing heat. Nanoparticles of several types may be used. Use of the same nanoparticles or of different one to monitor the reaction using a different light beam is also presented.
    Type: Grant
    Filed: August 17, 2018
    Date of Patent: March 31, 2020
    Inventors: Philip Roche, Andrew Kirk, Lenore Beitel, Miltiadis Paliouras, Mark Trifiro, Vamsy Chodavarapu, Mohamed Najih, Joachim Thiemann
  • Patent number: 10604787
    Abstract: A composition for reducing the inhibitory effects of contaminants on nucleic acid amplification is provided. The composition includes effective amounts of ferric iron, an organic iron-chelating reagent, and a non-ionic surfactant. Optionally, the composition includes polyvinylpyrrolidone. The composition has a pH of about 8.45 to 8.85. The organic iron-chelating reagent has a first affinity constant greater than or equal to 104.2 with respect to ferric iron and a second affinity constant less than 103.8 with respect to magnesium. The first affinity constant and the second affinity constant are determined in deionized water at pH 8.45 and 20° C. Methods of using the composition to prepare a sample for nucleic acid amplification are also provided.
    Type: Grant
    Filed: December 21, 2015
    Date of Patent: March 31, 2020
    Assignee: 3M INNOVATIVE PROPERTIES COMPANY
    Inventors: Gregory W. Sitton, Neil Percy