Patents Examined by Jezia Riley
  • Patent number: 11073512
    Abstract: Provided is a composition comprising an analyte bound covalently or through a first binding pair to a polymer. In this composition, the analyte is less than about 2000 MW; the polymer further comprises more than one signal or first member of a second binding pair; and the analyte is not a member of the first binding pair or the second binding pair. Also provided is an assay for an analyte. The assay comprises: combining a sample suspected of containing the analyte with the above-described composition and a binding agent that binds to the analyte; and detecting the signal or the first member of the second binding pair that is bound to the binding agent. Additionally provided is a multisignal labeling reagent comprising a first polymer covalently bound to (a) a reactive group or a first member of a first binding pair, and (b) more than one digoxigenin molecule.
    Type: Grant
    Filed: November 28, 2018
    Date of Patent: July 27, 2021
    Assignee: Enzo Life Sciences, Inc.
    Inventors: Jack Coleman, Maciej Szczepanik, Richard Jin
  • Patent number: 11053540
    Abstract: Fluorescence imaging system designs are described that provide larger fields-of-view, increased spatial resolution, improved modulation transfer and image quality, higher spatial sampling frequency, faster transitions between image capture when repositioning the sample plane to capture a series of images (e.g., of different fields-of-view), and improved imaging system duty cycle, and thus enable higher throughput image acquisition and analysis for genomics and other imaging applications.
    Type: Grant
    Filed: September 9, 2020
    Date of Patent: July 6, 2021
    Assignee: ELEMENT BIOSCIENCES, INC.
    Inventors: Steve Xiangling Chen, Minghao Guo, Michael Previte, Chunhong Zhou, Derek Fuller
  • Patent number: 11046994
    Abstract: A novel method for isolating DNA from juices and ciders is described. This method is low cost and yield large quantities of highly purified DNA even though one uses a small quantity of juice or cider. A method for determining if a juice or cider is safe to consume and/or the quality of the juice or cider are also described. For these methods, one can perform qPCR on the DNA which can be obtained using the disclosed method or any other prior art method, and comparing the amount of DNA from microorganisms is present in the juice and/or cider to determine the safety and/or quality of the juice and/or cider. These methods work even if the liquid was pasteurized.
    Type: Grant
    Filed: July 5, 2018
    Date of Patent: June 29, 2021
    Assignee: The United States of America, as represented by the Secretary of Agriculture
    Inventors: Wei Zhao, Elizabeth A Baldwin, Jinhe Bai, Anne Plotto
  • Patent number: 11046726
    Abstract: The present invention provides methods, compositions, mixtures and kits utilizing deoxynucleoside triphosphates comprising a 3?-O position capped by a group comprising methylenedisulfide as a cleavable protecting group and a detectable label reversibly connected to the nucleobase of said deoxynucleoside. Such compounds provide new possibilities for future sequencing technologies, including but not limited to Sequencing by Synthesis.
    Type: Grant
    Filed: March 22, 2018
    Date of Patent: June 29, 2021
    Assignee: QIAGEN SCIENCES, LLC
    Inventors: Mong Sano Marma, Jerzy Olejnik, Ilia Korboukh
  • Patent number: 11046721
    Abstract: The present invention provides ruthenium-based photolinker compounds, caged molecules comprising the ruthenium-based photolinker compounds, and methods of use. In certain aspects, the compositions disclosed herein comprise an active domain conjugated to a ruthenium-based photolinker, such that irradiation of the photolinker exposes the active domain.
    Type: Grant
    Filed: August 4, 2015
    Date of Patent: June 29, 2021
    Assignee: The Trustees of the University of Pennsylvania
    Inventors: Ivan J. Dmochowski, Julianne C. Griepenburg, Teresa L. Rapp
  • Patent number: 11046999
    Abstract: It has been established that one or more large double stranded DNA fragments (each 2,000 to 40,000 base pairs in size) can be captured and isolated from genomic DNA fragments using sequence specific PNA hybridization probes. Compositions and methods for enrichment of a multiplicity of long DNA sequences selected from the genome of any eukaryote are provided. Capture is performed using multiple PNA molecules with gamma-modified chiral backbones, comprising a mixture of neutral and positive chemical groups. Two or more PNA probes with covalently bound haptens, preferably biotin, target each DNA domain of interest for capture, isolation, and subsequent sequencing analysis of the multiplicity of enriched targets, including DNA methylation sequencing. The methods include enhancement of probe-DNA binding specificity through single strand binding proteins (SSB).
    Type: Grant
    Filed: September 16, 2016
    Date of Patent: June 29, 2021
    Assignee: PetaOmics, Inc.
    Inventors: Paul M. Lizardi, Brent W. Ferguson
  • Patent number: 11034964
    Abstract: This invention provides for processes for creating a long DNA molecule that is a concatamer that comprises a repeating oligonucleotide segment, wherein one or more of the nucleotides of said segment has one or more independently selected templating “non-standard” nucleotides. These are nucleotide analogs that, when incorporated into oligonucleotides (DNA or RNA, collectively xNA), present to a pattern of hydrogen bonds that is different from the pattern presented by adenine, guanine, cytosine, and uracil. This disclosure provides a process for obtaining these using rolling circle amplification.
    Type: Grant
    Filed: December 18, 2019
    Date of Patent: June 15, 2021
    Inventors: Steven A Benner, Diane Rowold
  • Patent number: 11034677
    Abstract: The present invention generally relates to coumarin-based compounds that can be used for the labeling of biological molecules, as well as related synthetic and testing methods. The coumarin-based compounds typically survive conditions necessary for automated synthesis of nucleic acids without undergoing any substantial degree of degradation or alteration.
    Type: Grant
    Filed: January 19, 2016
    Date of Patent: June 15, 2021
    Assignee: BIOSEARCH TECHNOLOGIES, INC.
    Inventor: Anthony de Jesus Sanchez
  • Patent number: 11028116
    Abstract: The invention provides a nucleotide or nucleoside having a base attached to a detectable label via a cleavable linker, characterised in that the cleavable linker contains a moiety selected from the group comprising: Formula (I) (wherein X is selected from the group comprising O, S, NH and NQ wherein Q is a C1-10 substituted or unsubstituted alkyl group, Y is selected from the group comprising O, S, NH and N(allyl), T is hydrogen or a C1-10 substituted or unsubstituted alkyl group and * indicates where the moiety is connected to the remainder of the nucleotide or nucleoside).
    Type: Grant
    Filed: September 28, 2020
    Date of Patent: June 8, 2021
    Assignee: Illumina Cambridge Limited
    Inventors: Xiaohai Liu, John Milton, Silke Ruediger, Xiaolin Wu
  • Patent number: 11028121
    Abstract: Provided are compounds comprising two DNA supramolecular binding molecules covalently joined by a linker group. Also provided are multisignal labeling reagents comprising (i) an oligomer of nucleotides or nucleotide analogs; (ii) a DNA supramolecular binding molecule noncovalently bound to the oligomer; and (iii) a first reactive group or a first partner of a first binding pair covalently bound to the oligomer. Additionally provided are methods of producing multisignal labeling reagents.
    Type: Grant
    Filed: March 26, 2020
    Date of Patent: June 8, 2021
    Assignee: ENZO LIFE SCIENCES, INC.
    Inventors: Jack Coleman, Elazar Rabbani, Jannis Stavrianopoulos, Praveen Pande
  • Patent number: 11028115
    Abstract: The invention provides a nucleotide or nucleoside having a base attached to a detectable label via a cleavable linker, characterised in that the cleavable linker contains a moiety selected from the group comprising: Formula (I) (wherein X is selected from the group comprising O, S, NH and NQ wherein Q is a C1-10 substituted or unsubstituted alkyl group, Y is selected from the group comprising O, S, NH and N(allyl), T is hydrogen or a C1-10 substituted or unsubstituted alkyl group and * indicates where the moiety is connected to the remainder of the nucleotide or nucleoside).
    Type: Grant
    Filed: September 28, 2020
    Date of Patent: June 8, 2021
    Assignee: Illumina Cambridge Limited
    Inventors: Xiaohai Liu, John Milton, Silke Ruediger, Xiaolin Wu
  • Patent number: 11021736
    Abstract: The present invention pertains to a method for isolating extracellular nucleic acids from a sample, wherein said sample is optionally stabilized, by binding the extracellular nucleic acids to a solid phase which carries anion exchange groups, comprising the following steps: a. binding the extracellular nucleic acids to the solid phase in a binding mixture having a first pH which allows binding the extracellular nucleic acids to the anion exchange groups of the solid phase; wherein the sample makes up at least 85% of the volume of the binding mixture; b. separating the solid phase with the bound extracellular nucleic acids; c. optionally washing the extracellular nucleic acids; d. optionally eluting extracellular nucleic acids from the solid phase. The method has the advantage that large sample volumes can be processed and that extracellular nucleic acids can be isolated rapidly with a high yield. The method is particularly suitable for automatable processes.
    Type: Grant
    Filed: November 29, 2018
    Date of Patent: June 1, 2021
    Assignee: Qiagen GmbH
    Inventors: Martin Horlitz, Annette Nocon, Markus Sprenger-Haussels, Peter Grünefeld, Christoph Erbacher
  • Patent number: 11016009
    Abstract: Disclosed is a method of isolating extracellular vesicles using an aqueous two-phase system (ATPS), including (a) preparing an ATPS by mixing a first material and a second material, which are immiscible with each other, with a body fluid or an aqueous solution containing extracellular vesicles and (b) isolating extracellular vesicles concentrated in the second material of the ATPS. This method can exhibit very high isolation efficiency, a simple isolation manner, and a very short isolation time. The isolation of extracellular vesicles using the ATPS requires no ultracentrifuge and achieves almost 100% isolation efficiency within a short time of about 10˜20 min, and thus the method of the invention is practical, is economical due to low costs thereof, can increase the purity of extracellular vesicles contaminated with protein, enables the diagnosis of disease using the isolated extracellular vesicles, and can be applied to various fields using extracellular vesicles.
    Type: Grant
    Filed: March 3, 2016
    Date of Patent: May 25, 2021
    Assignees: POSTECH ACADEMY-INDUSTRY FOUNDATION, THE REGENTS OF THE UNIVERSITY OF MICHIGEN
    Inventors: Jae Sung Park, Joseph M Labuz, Shuichi Takayama, Hyun Woo Shin, Chung Min Han
  • Patent number: 11014958
    Abstract: Compositions, methods, and systems are provided for fluorescent polymerase enzyme substrates comprising protein shields for improving enzyme photostability in single molecule real time sequencing. Fluorescent polymerase enzyme substrates of the invention have a protein shield between the fluorescent dye moieties and nucleotide moieties of the polymerase enzyme substrate. The polymerase enzyme substrates have a nucleotide component and a dye component, each attached to a protein. The attachments can be covalent. The protein can, for example, prevent the direct interaction of the fluorescent dye moiety with the enzyme when carrying out nucleotide synthesis, preventing photodamage to the enzyme. The polymerase enzyme substrates of the invention can have multiple dyes and multiple nucleotide moieties.
    Type: Grant
    Filed: June 19, 2018
    Date of Patent: May 25, 2021
    Assignee: Pacific Biosciences of California, Inc.
    Inventors: Keith Bjornson, Jeremiah Hanes, Erik Miller, Satwik Kamtekar, Lubomir Sebo, Louis Brogley
  • Patent number: 11008613
    Abstract: The present disclosure relates to compounds comprising a negatively-charged polymer moiety which is capable of entering a nanopore and upon entering a nanopore in the presence of positive ions results in an increased flow of the positive ions through the nanopore. The present disclosure provides methods of preparing the compounds and for their use as nanopore-detectable tags, in particular, for nanopore-based nucleic acid detection and sequencing.
    Type: Grant
    Filed: March 20, 2020
    Date of Patent: May 18, 2021
    Assignee: Roche Sequencing Solutions, Inc.
    Inventors: Dmitriy Gremyachinskiy, Peter Crisalli, Andrew Trans, Ashwini Bhat
  • Patent number: 11008359
    Abstract: The invention provides a nucleotide or nucleoside having a base attached to a detectable label via a cleavable linker, characterised in that the cleavable linker contains a moiety selected from the group comprising: Formula (I) (wherein X is selected from the group comprising O, S, NH and NQ wherein Q is a C1-10 substituted or unsubstituted alkyl group, Y is selected from the group comprising O, S, NH and N(allyl), T is hydrogen or a C1-10 substituted or unsubstituted alkyl group and * indicates where the moiety is connected to the remainder of the nucleotide or nucleoside).
    Type: Grant
    Filed: June 30, 2020
    Date of Patent: May 18, 2021
    Assignee: Illumina Cambridge Limited
    Inventors: Xiaohai Liu, John Milton, Silke Ruediger, Xiaolin Wu
  • Patent number: 11001887
    Abstract: The invention provides methods and compositions, including, without limitation, algorithms, computer readable media, computer programs, apparatus, and systems for determining the identity of nucleic acids in nucleotide sequences using, for example, data obtained from sequencing by synthesis methods. The methods of the invention include correcting one or more phenomena that are encountered during nucleotide sequencing, such as using sequencing by synthesis methods. These phenomena include, without limitation, sequence lead, sequence lag, spectral crosstalk, and noise resulting from variations in illumination and/or filter responses.
    Type: Grant
    Filed: June 3, 2019
    Date of Patent: May 11, 2021
    Assignee: QIAGEN SCIENCES, LLC
    Inventors: Steven Gordon, Jerzy Olejnik
  • Patent number: 11001602
    Abstract: The present disclosure relates to photoactivable protecting groups containing a diarylsulfide chromophore, a method for the synthesis thereof and their use as photoactivable protecting groups using maskless photolithography based array synthesis.
    Type: Grant
    Filed: October 26, 2018
    Date of Patent: May 11, 2021
    Assignee: Roche Diagnostics Operations, Inc.
    Inventor: Klaus-Peter Stengele
  • Patent number: 11001888
    Abstract: The present disclosure relates to new nucleotide and oligonucleotide compounds and their use in nucleic acid sequencing applications.
    Type: Grant
    Filed: January 2, 2020
    Date of Patent: May 11, 2021
    Assignee: Illumina Cambridge Limited
    Inventors: Elena Cressina, Antoine Francais, Xiaohai Liu
  • Patent number: 11001890
    Abstract: Methods are disclosed for detecting peripheral mitochondrial DNA damage and dysfunction. Methods are also disclosed that utilize blood samples to detect a neurodegenerative disease, such as Parkinson's disease, and determine the efficacy of therapy.
    Type: Grant
    Filed: September 8, 2016
    Date of Patent: May 11, 2021
    Assignee: University of Pittsburgh—Of the Commonwealth System of Higher Education
    Inventors: Laurie H. Andolina, John T. Greenamyre, Sruti Shiva