Patents Examined by Karla A Dines
  • Patent number: 10732180
    Abstract: A universal array for multiplexed quantification of variable hemagglutinin such as subcomponents of multivalent annual influenza vaccines that is robust to variations in proteins such as mutations and is capable of quantifying degradation of proteins. Universal capture array (100) comprises one or more substrates (102) and a low-density microarray (104) of sub-arrays (108) comprising spots (106a-c). The microarray (104) is contacted with one or more targets (202) at one or more unknown concentrations, and bound complexes (203) are formed and subsequently quantified with a suitable method. Quantified signals are compared to calibration curves to obtain one or more unknown concentrations and/or quantify degradation of the one or more targets (202). Other embodiments are described and shown.
    Type: Grant
    Filed: June 4, 2014
    Date of Patent: August 4, 2020
    Assignee: INDEVR, INC.
    Inventors: Kathy Rowlen, Laura R. Kuck
  • Patent number: 10725020
    Abstract: The present invention provides an apparatus for conducting biological assays which employs “virtual wells” in lieu of the physical wells of conventional array plates. Also provided are methods of processing a sample and/or culturing cells using the apparatus and systems described herein. In some embodiments, the apparatus includes a first structure having a sheet layer with a plurality of discrete through holes; and a second structure coupled to the first structure, the second structure including a base layer. At least a portion of a first surface of the sheet layer of the first structure is exposed from the second structure, and a second surface of the sheet layer, opposite to the first surface of the sheet layer, is embedded in the base layer of the second structure adjacent the first surface of the base layer.
    Type: Grant
    Filed: October 9, 2013
    Date of Patent: July 28, 2020
    Assignee: Curiox Biosystems Pte Ltd.
    Inventors: Kong Leong Cheng, Siah Chong Cheong, Namyong Kim, Eng Seng Lim, Hanwen Melvin Lye, Zhong Wang, Wan Yee Leong, Mark S. Phong
  • Patent number: 10724075
    Abstract: Embodiments disclosed herein provide reagents and kits for nucleic acid preparation comprising a siderophore. Embodiments disclosed herein provide methods for preparing a nucleic acid library, which comprise: providing a plurality of nucleic acid molecules from a sample; and manipulating the plurality of nucleic acid molecules in a reagent for nucleic acid preparation comprising a siderophore. Further, embodiments disclosed herein provide methods for reducing oxidative damage to a nucleic acid molecule or increasing the Q (phred) score of a sequencing reaction, which methods comprise preparing the nucleic acid molecule in the absence of EDTA.
    Type: Grant
    Filed: October 19, 2017
    Date of Patent: July 28, 2020
    Assignee: Illumina Cambridge Limited
    Inventors: Vincent Peter Smith, Sohela de Rozieres
  • Patent number: 10711271
    Abstract: This disclosure provides, among other things, a method for making a cDNA library. In some embodiments the method may comprise reverse transcribing mRNA to produce DNA:mRNA hybrids, treating the DNA:mRNA hybrids with RNAseH to produce mRNA fragments, and reverse transcribing the mRNA fragments.
    Type: Grant
    Filed: November 20, 2017
    Date of Patent: July 14, 2020
    Assignee: BIOO SCIENTIFIC CORPORATION
    Inventors: Kevin Allen, Adam Morris
  • Patent number: 10704076
    Abstract: A high through-put screening method for identifying agents effective for inhibiting biofilm formation and/or killing established biofilm are disclosed. The method includes three tiers, and each tier includes three specific biological process assays. The tier levels are a primary screen, a confirmation screen, and a dose-response screen, and the biological process assays include assays for total bacterial growth, bacterial metabolic activity, and biofilm formation. The series of assays may be run once or more than once at each tier. A library of compounds is subject to tier A and only compounds meeting a primary parameter advance to tier B, and only tier B compounds meeting a confirmation parameter advance to tier C, and only tier C compounds meeting a dose-response parameter are identified as putative agents effective for inhibiting and/or eradicating a biofilm, further wherein the assays are conducted for each compound subject to the respective tier.
    Type: Grant
    Filed: December 18, 2018
    Date of Patent: July 7, 2020
    Assignees: University of Cincinnati, Government of the United States as Represented by the Secretary of the Air Force
    Inventors: Daniel J. Hassett, Thomas J. Lamkin, Warunya Panmanee, Deborah E. Taylor, Chloe J. A. Shea
  • Patent number: 10697010
    Abstract: Disclosed herein are methods for single-cell sequencing. In some examples, the methods include enriching a sample comprising a plurality of cells for cells of interest to produce an enriched cell sample; isolating one or more cells of interest in the enriched cell sample; and obtaining sequence information of one or more polynucleotides from each of the one or more isolated cells. Obtaining sequence information may include generating a molecularly indexed polynucleotide library from the one or more isolated cells. Enriching the sample may include focusing cells of interest in the sample using acoustic focusing.
    Type: Grant
    Filed: February 17, 2016
    Date of Patent: June 30, 2020
    Assignee: BECTON, DICKINSON AND COMPANY
    Inventors: Clark Mason, Liping Yu
  • Patent number: 10697013
    Abstract: Aspects of the present invention include analyzing nucleic acids from single cells using methods that include using tagged polynucleotides containing multiplex identifier sequences.
    Type: Grant
    Filed: March 12, 2020
    Date of Patent: June 30, 2020
    Assignee: 10X Genomics, Inc.
    Inventors: Sydney Brenner, Gi Mikawa, Robert Osborne, Andrew Slatter
  • Patent number: 10668444
    Abstract: Provided is an array including a solid support having a surface, the surface having a plurality of wells, the wells containing a gel material, the wells being separated from each other by interstitial regions on the surface, the interstitial regions segregating the gel material in each of the wells from the gel material in other wells of the plurality; and a library of target nucleic acids in the gel material, wherein the gel material in each of the wells comprises a single species of the target nucleic acids of the library. Methods for making and using the array are also provided.
    Type: Grant
    Filed: November 22, 2016
    Date of Patent: June 2, 2020
    Assignee: ILLUMINA, INC.
    Inventors: Steven M. Barnard, M. Shane Bowen, Maria Candelaria Rogert Bacigalupo, Wayne N. George, Andrew A. Brown, James Tsay
  • Patent number: 10655173
    Abstract: The present invention relates to molecular microscopy or volumetric imaging by proximal unique molecular identifiers (“UID”) reaction (“VIPUR”) microscopy methods to record the cellular co-localization and/or spatial distributions of arbitrary nucleic acid sequences, or other biomolecules tagged with nucleic sequences. The method involves one or both of two DNA sequence-components such as an ?-UID, which may identify the targeted sequences-of-interest themselves and/or spatial beacons relative to which their distances are measured, and a- ?-UID, which labels ?-UID association events.
    Type: Grant
    Filed: October 17, 2014
    Date of Patent: May 19, 2020
    Assignees: THE BROAD INSTITUTE, INC., MASSACHUSETTS INSTITUTE OF TECHNOLOGY
    Inventors: Feng Zhang, Joshua Asher Weinstein, Aviv Regev
  • Patent number: 10655124
    Abstract: The invention provides methods for identifying binding partners (e.g., peptide ligands) that binds to a target protein (e.g., a cellular receptor). The methods entail co-localized expression of the target protein and candidate binding partners, and selection of binding partners based on their proximity in the plasma membrane.
    Type: Grant
    Filed: October 16, 2015
    Date of Patent: May 19, 2020
    Assignee: The Scripps Research Institute
    Inventors: Richard A. Lerner, Hongkai Zhang, Jia Xie
  • Patent number: 10655163
    Abstract: Described herein are methods, compositions, kits and systems for multiplexed detection of target molecules from a sample. In some embodiments, the methods, compositions, kits and systems can be used to perform multiplexed protein analysis of a sample (e.g., a sample comprising a small number of cells or a single-cell sample). In some embodiments, the same sample subjected to a multiplexed protein analysis using the methods, compositions, kits and systems described herein can also be subjected to a nucleic acid (e.g., RNAs, microRNAs, and/or DNA) analysis, thereby creating an integrated expression profiling from a limited amount of sample.
    Type: Grant
    Filed: March 4, 2019
    Date of Patent: May 19, 2020
    Assignee: THE GENERAL HOSPITAL CORPORATION
    Inventors: Ralph Weissleder, Sarit S. Agasti, Vanessa M. Peterson, Adeeti Ullal
  • Patent number: 10648968
    Abstract: A method for evaluating in vitro the effect of a xenobiotic (e.g., a drug) on drug metabolism in hepatocytes. The kit comprises a first culture of hepatocytes, a portion of in vitro xenobiotic-stimulated biological sample, and instructions for incubating the first culture of hepatocytes with the portion of in vitro xenobiotic-stimulated biological sample, and analyzing the activity, expression, or a combination thereof of a biomarker in the hepatocytes to evaluate the effect of the xenobiotic on drug metabolism in the hepatocytes.
    Type: Grant
    Filed: May 18, 2018
    Date of Patent: May 12, 2020
    Assignee: XenoTech, L.L.C.
    Inventors: Maciej Czerwinski, David Benjamin Buckley, Faraz Kazmi
  • Patent number: 10640824
    Abstract: Provided herein are methods, systems, kits and compositions for identifying nucleic acids of interest from individual cells. The methods include isolating single cells on electrodes and identifying nucleic acids of interest from the isolated cells by sequencing.
    Type: Grant
    Filed: May 30, 2017
    Date of Patent: May 5, 2020
    Assignee: VERILY LIFE SCIENCES LLC
    Inventors: Ian Peikon, Andrew Homyk
  • Patent number: 10640809
    Abstract: Presented herein are methods and compositions for analyzing rare nucleic acid species. Some methods presented herein use DNA reassociation kinetics following thermal denaturation to define populations of nucleic acid sequences, e.g., highly abundant (e.g., cDNA from rRNA), moderately abundant, and less abundant or rare sequences (e.g., cDNA from mRNA).
    Type: Grant
    Filed: May 27, 2016
    Date of Patent: May 5, 2020
    Assignee: EPICENTRE TECHNOLOGIES CORPORATION
    Inventors: Scott Kuersten, Agnes Radek, Ramesh Vaidyanathan, Haiying Li Grunenwald
  • Patent number: 10641772
    Abstract: The present disclosure provides methods, device, assemblies, and systems for dispensing and visualizing single cells. For example, provided herein are systems and methods for dispensing a dispense volume into a plurality of wells of a multi-well device, where, on average, a pre-determined number of cells (e.g., 1-20) are present in the dispense volume, and determining, via a cellular label, the number of cells present in each of the plurality of wells. Such dispensing and cell detection may be repeated a number of times with respect to wells identified as having less than the pre-determined number of cells in order increase the number wells in the multi-well device containing the desired number (e.g., a single cell).
    Type: Grant
    Filed: February 20, 2016
    Date of Patent: May 5, 2020
    Assignee: TAKARA BIO USA, INC.
    Inventors: Alain-Albert Mir, Thomas D. Schaal, Chun-Wah Lin, Shanavaz Loharasp D. Nasarabadi, Jude Dunne, Maithreyan Srinivasan, Patricio Espinoza
  • Patent number: 10632468
    Abstract: An apparatus configured for improving retention of non-adherent cells is disclosed. The apparatus includes a plate that includes a number of elements having a first surface energy arranged in an array with an overlay, on the plate, having a second surface energy. The first surface energy results in a hydrophilic surface and the second surface energy results in a hydrophobic surface. A diameter of the elements is at least 1 mm. A height of the overlay having the second surface energy, which results in a hydrophobic surface, is between 5% and 100% of the diameter of the elements. The apparatus also includes a wall circumferential to the plate. A method for performing multiple reactions with the apparatus is also disclosed.
    Type: Grant
    Filed: January 30, 2018
    Date of Patent: April 28, 2020
    Assignee: Curiox Biosystems Pte Ltd.
    Inventors: Namyong Kim, Siah Chong Cheong, Hanwen Melvin Lye, Mark Siew Peng Phong, Li Li, Teow Soon Seah
  • Patent number: 10633702
    Abstract: Aspects of the present invention include analyzing nucleic acids from single cells using methods that include using tagged polynucleotides containing multiplex identifier sequences.
    Type: Grant
    Filed: June 17, 2019
    Date of Patent: April 28, 2020
    Assignee: 10X GENOMICS, INC.
    Inventors: Sydney Brenner, Gi Mikawa, Robert Osborne, Andrew Slatter
  • Patent number: 10626442
    Abstract: The invention provides methods, compositions, kits and devices for the detection of target molecules. In some embodiments, the invention allows for multiplexed target molecule detection.
    Type: Grant
    Filed: May 17, 2017
    Date of Patent: April 21, 2020
    Assignee: Roche Sequencing Solutions, Inc.
    Inventor: Garry P. Nolan
  • Patent number: 10626436
    Abstract: A method of determining variation between a query cell culture media and a reference cell culture media is provided. The method comprises the steps of incubating a reference cell with an aliquot of the query culture media and at least three chemical cell stressors in wells of a microtitre plate and determining an environmental response of the reference cell in the presence of the query cell culture media and each of the plurality of chemical cell stressors. A query cell culture media specific environmental response fingerprint is generated comprising the plurality of chemical cell stressor specific environmental responses. The query cell culture media-specific environmental response fingerprint is compared with a reference media-specific environmental response fingerprints corresponding to a reference cell culture media and generated using the reference cell.
    Type: Grant
    Filed: April 1, 2016
    Date of Patent: April 21, 2020
    Assignee: Valitacell Limited
    Inventors: Jerry Clifford, David James, Ben Thompson
  • Patent number: 10596541
    Abstract: The present invention generally relates to microfluidics and labeled nucleic acids. For example, certain aspects are generally directed to systems and methods for labeling nucleic acids within microfluidic droplets. In one set of embodiments, the nucleic acids may include “barcodes” or unique sequences that can be used to distinguish nucleic acids in a droplet from those in another droplet, for instance, even after the nucleic acids are pooled together. In some cases, the unique sequences may be incorporated into individual droplets using particles and attached to nucleic acids contained within the droplets (for example, released from lysed cells). In some cases, the barcodes may be used to distinguish tens, hundreds, or even thousands of nucleic acids, e.g., arising from different cells or other sources.
    Type: Grant
    Filed: October 3, 2017
    Date of Patent: March 24, 2020
    Assignees: President and Fellows of Harvard College, Vilnius University
    Inventors: David A. Weitz, Allon Moshe Klein, Ilke Akartuna, Linas Mazutis, Marc W. Kirschner