Patents Examined by Jeremy C Flinders
  • Multiplexed parallel analysis of targeted genomic regions for non-invasive prenatal testing
    Patent number: 11111538
    Abstract: The invention provides methods for non-invasive prenatal testing that allow for detecting risk of chromosomal and subchromosomal abnormalities, including but not limited to aneuploidies, microdeletions and microduplications, insertions, translocations, inversions and small-size mutations including point mutations and mutational signatures. The methods of the invention utilize a pool of TArget Capture Sequences (TACS) to enrich for sequences of interest in a mixed sample containing both maternal and fetal DNA, followed by massive parallel sequencing and statistical analysis of the enriched population to thereby detect the risk of a genetic abnormality in the fetal DNA. Kits for carrying out the methods of the invention are also provided.
    Type: Grant
    Filed: May 20, 2016
    Date of Patent: September 7, 2021
    Assignee: NIPD GENETICS PUBLIC COMPANY LTD
    Inventors: George Koumbaris, Elena Kypri, Kyriakos Tsangaras, Achilleas Achilleos, Petros Mina, Elisavet A. Papageorgiou, Philippos C. Patsalis
  • Method for preparing electrocompetent yeast cells, and method for using said cells
    Patent number: 11104894
    Abstract: The present invention relates to improved yeast transformation of yeast cells and yeast cell libraries transformed thereby. More specifically, the present invention relates to the transformation of yeast by electroporation.
    Type: Grant
    Filed: May 8, 2020
    Date of Patent: August 31, 2021
    Assignee: IMMATICS BIOTECHNOLOGIES GMBH
    Inventors: Sebastian Bunk, Dominik Maurer, Felix Unverdorben
  • Method for the diagnosis of Gaucher's disease
    Patent number: 11092609
    Abstract: The present invention is related to an in vitro method for diagnosing Gaucher's disease in a subject comprising a step of a) detecting a biomarker in a sample from the subject, wherein the biomarker is free lyso-Gb1.
    Type: Grant
    Filed: April 30, 2018
    Date of Patent: August 17, 2021
    Assignee: Centogene GmbH
    Inventors: Arndt Rolfs, Hermann Mascher
  • Method of producing DNA and DNA library
    Patent number: 11085042
    Abstract: A method of producing a cDNA from a sample of nucleic acids includes the steps of: generating a dephosphorylated RNA from the sample; ligating the dephosphorylated RNA with a first adapter in the presence of a crowding agent to produce a ligated product; removing the excess first adapter by adding at least two enzymes; and performing reverse transcription in a lithium-containing buffer to produce the cDNA. A method of preparing a DNA library and a kit for such preparation are also disclosed.
    Type: Grant
    Filed: April 19, 2018
    Date of Patent: August 10, 2021
    Assignee: City University of Hong Kong
    Inventors: Chun Kit Kwok, Pui Yan Yeung
  • Methods of generating libraries of nucleic acid sequences for detection via fluorescent in situ sequencing
    Patent number: 11085072
    Abstract: The present disclosure provides a number of targeted nucleic acid FISSEQ library construction methods. Targeted FISSEQ can exhibit several benefits, such as enhanced sensitivity and/or shorter assay time in the detection, identification, quantification, and/or determining the nucleotide sequence of the target species, relative to “random” or “whole-omic” detection via FISSEQ.
    Type: Grant
    Filed: February 26, 2019
    Date of Patent: August 10, 2021
    Assignee: President and Fellows of Harvard College
    Inventors: George M. Church, Evan R. Daugharthy, Richard C. Terry, Benjamin W. Pruitt, Brian M. Turczyk
  • Methods to determine carcinogenesis, identify markers for early cancer diagnosis and identify targets of therapy
    Patent number: 11085083
    Abstract: Methods and techniques to identify carcinogenesis pathways and markers for early cancer diagnosis. Cell sampling is performed on a single tumor with multiple samples being taken from the tumor and outward toward the periphery and beyond. Large scale analysis is performed, such as whole genomic sequencing, to identify the differences between the cells of the various samples. The differences are evaluated to determine which differences represent a change along the carcinogenesis pathway.
    Type: Grant
    Filed: March 18, 2014
    Date of Patent: August 10, 2021
    Assignee: VISIBLE GENOMICS, LLC
    Inventors: James M. Barbeau, John S. DePaolo
  • Duplex sequencing using direct repeat molecules
    Patent number: 11078482
    Abstract: Described herein is a population of direct repeat molecules, where each molecule of the population contains a direct repeat composed of sequences that are amplified from the opposite strands of a double-stranded fragment of genomic DNA. Within each molecule, the first repeat (referred to as TOP) is amplified from the one strand of a double-stranded fragment of genomic DNA and the second repeat (referred to as BOT?) is amplified from the other strand of the same fragment of double-stranded fragment of genomic DNA.
    Type: Grant
    Filed: June 14, 2018
    Date of Patent: August 3, 2021
    Assignee: GENOME RESEARCH LIMITED
    Inventors: Robert Osborne, Christopher Laumer
  • Biomarkers and methods for diagnosis of early stage pancreatic ductal adenocarcinoma
    Patent number: 11079384
    Abstract: The present invention provides biomarker compositions and methods for the diagnosis and prognosis of PDAC. In a particular embodiment, the invention provides methods and compositions for screening, diagnosis and prognosis of early stage, asymptomatic PDAC.
    Type: Grant
    Filed: October 21, 2019
    Date of Patent: August 3, 2021
    Assignee: University of Utah Research Foundation
    Inventors: Sean J. Mulvihill, Matthew A. Firpo
  • Characterization of adaptive immune response to vaccination or infection using immune repertoire sequencing
    Patent number: 11066705
    Abstract: Methods of monitoring and measuring dynamic adaptive immune cell responses are provided. High-throughput sequencing of T cell receptor and immunoglobulin loci is used to characterize the breadth of an effector cell response to a stimulus, such as a vaccine or infection. Unique responding effector cell clones and abundance thereof can be determined. Additionally, methods for determining the contribution of responding effector cells to the immunological memory compartment are provided.
    Type: Grant
    Filed: November 24, 2015
    Date of Patent: July 20, 2021
    Assignees: Adaptive Biotechnologies Corporation, Fred Hutchinson Cancer Research Center
    Inventors: Harlan S. Robins, William Sumner DeWitt, III, Ryan O. Emerson
  • SH3 domain derivatives
    Patent number: 11060084
    Abstract: The present invention is directed to SH3 domain derivatives having a specific binding affinity to a target molecule. In this respect, the invention provides SH3 domain derivatives of nephrocystin (NPHP1) and the Tec kinase. The invention also provides a method for the production of a library comprising recombinant derivatives of NPHP1 or the Tec kinase SH3 domains and a method for selecting from the library one or more derivatives of the SH3 domain of nephrocystin (NPHP1) or the Tec kinase having a specific binding affinity to a target molecule.
    Type: Grant
    Filed: July 8, 2016
    Date of Patent: July 13, 2021
    Assignee: Next Biomed Therapies Oy
    Inventor: Kalle Saksela
  • Ligand binding assay for detecting gibberellins
    Patent number: 11046960
    Abstract: A method of detecting gibberellins, for example in barley. Current methods of detecting gibberellins require dedicated equipment which makes it expensive and time consuming. A ligand bind assay for detecting gibberellins in which the above disadvantages could at least partially be overcome or alleviated is described. The ligand binding assay uses aptamers for the detection of gibberellins in barley seeds.
    Type: Grant
    Filed: July 26, 2017
    Date of Patent: June 29, 2021
    Assignee: University of Johannesburg
    Inventors: Charles Stephen Whitehead, Eduard Venter, Joseph Adrian Walker, Kha Quan Tram
  • Detection and modification of gut microbial population
    Patent number: 11041847
    Abstract: Methods and systems for evaluating heath/disease state of an individual are provided herein. In particular, the disclosure provides methods for measuring levels of one or more metabolites of interest in an individual and using these measurements to assess the individual's health. The disclosure also provides systems for carrying out the disclosed methods. For example, the disclosed systems may include a metabolite level evaluation module to determine the individual's heath based on the metabolite levels measured.
    Type: Grant
    Filed: April 27, 2020
    Date of Patent: June 22, 2021
    Assignee: IXCELA, INC.
    Inventors: Wayne R. Matson, Samantha A. Matson, Erika N. Ebbel-Angle, Srikant Sarangi
  • RNA array compositions and methods
    Patent number: 11041151
    Abstract: Described herein are RNA arrays, and compositions and methods for generating RNA arrays, particularly high density RNA arrays. The disclosed methods for generating RNA arrays utilize template DNA arrays and RNA polymerase to generate RNA arrays. In some embodiments, the disclosed methods use an RNA polymerase and modified ribonucleosides to generate modified RNA arrays for various applications, e.g. RNA arrays having higher nuclease resistance, more conformationally stable RNA arrays, and higher binding affinity RNA aptamer arrays. In some embodiments, the disclosed methods are used to generate RNA bead arrays.
    Type: Grant
    Filed: December 7, 2017
    Date of Patent: June 22, 2021
    Assignee: Wisconsin Alumni Research Foundation
    Inventors: Lloyd Smith, Cheng-Hsien Wu
  • Multiplex proteome quantification method based on isobaric dimethyl labeling
    Patent number: 11029316
    Abstract: A multiplex proteome quantification method based on isobaric dimethyl labeling implements dimethyl labeling of peptide N-terminal in an acidic condition and C-terminal in an alkaline condition one after another by means of Hall the property that a dimethylation reaction has different rates on an amino group at the peptide N-terminal and an amino group on a Lysine side chain at the peptide C-terminal in the acidic condition. Multiplex labeling of peptide samples is implemented by means of the organic combination of various isotope forms of a dimethyl labeling reagents. The mass-to-charge ratios in MS1 of peptides after multiplex labeling are completely the same, the mass-to-charge ratios of the fragment ions in MS2 are different, and multiplex quantitative analyses are carried out by extracting the intensity values of corresponding fragment ions in the MS2.
    Type: Grant
    Filed: November 20, 2015
    Date of Patent: June 8, 2021
    Assignee: DALIAN INSTITUTE OF CHEMICAL PHYSICS, CHINESE ACADEMY OF SCIENCES
    Inventors: Lihua Zhang, Jianhui Liu, Yuan Zhou, Kaiguang Yang, Yukui Zhang
  • Chemically encoded spatially addressed library screening platforms
    Patent number: 11015265
    Abstract: Provided herein are encoded split pool libraries useful, inter alia, for forming highly diverse and dense arrays for screening and detection of a variety of molecules.
    Type: Grant
    Filed: July 28, 2020
    Date of Patent: May 25, 2021
    Assignee: City of Hope
    Inventors: Jacob Berlin, Gregory Copeland, Kathleen Elison, Hurik Muradyan
  • Chemically encoded spatially addressed library screening platforms
    Patent number: 11015266
    Abstract: Provided herein are encoded split pool libraries useful, inter alia, for forming highly diverse and dense arrays for screening and detection of a variety of molecules.
    Type: Grant
    Filed: July 30, 2020
    Date of Patent: May 25, 2021
    Assignee: City of Hope
    Inventors: Jacob Berlin, Gregory Copeland, Kathleen Elison, Hurik Muradyan
  • Compounds and systems for improving signal detection
    Patent number: 10995365
    Abstract: Compositions, devices, systems and methods for increasing the signal to noise ratio (SNR) and/or enhancing photoprotection in an illuminated analytical reaction by addition of one or more signal detection assay (SDA)-enhancing agents to the reaction mixture.
    Type: Grant
    Filed: October 25, 2018
    Date of Patent: May 4, 2021
    Inventors: Stephen Yue, Andrei Fedorov, Gene Shen, Sophia Wu
  • Method for development of monoclonal antibodies
    Patent number: 10995134
    Abstract: This invention provides a method and a kit for rapid and robust development monoclonal antibodies. The method does not require hybrid technologies nor does it require single cell manipulations. The method allows elimination of cross-target antibodies.
    Type: Grant
    Filed: September 30, 2016
    Date of Patent: May 4, 2021
    Assignee: Icosagen Cell Factoey Oil
    Inventors: Gaily Kivi, Kaupo Teesalu, Jüri Parik, Mart Ustav, Andres Männik
  • Libraries of heteroaryl-containing macrocyclic compounds and methods of making and using the same
    Patent number: 10981931
    Abstract: The present disclosure relates to novel macrocyclic compounds and libraries thereof containing heteroaryl moieties that are useful as research tools for drug discovery efforts. The present disclosure also relates to methods of preparing these compounds and libraries and methods of using these libraries, such as in high throughput screening. In particular, these libraries are useful for evaluation of bioactivity at existing and newly identified pharmacologically relevant targets, including G protein-coupled receptors, nuclear receptors, enzymes, ion channels, transporters, transcription factors, protein-protein interactions and nucleic acid-protein interactions. As such, these libraries can be applied to the search for new pharmaceutical agents for the treatment and prevention of a range of medical conditions.
    Type: Grant
    Filed: July 25, 2019
    Date of Patent: April 20, 2021
    Assignee: CYCLENIUM PHARMA INC.
    Inventors: Amal Wahhab, Helmut Thomas, Luc Richard, Mark L. Peterson, Dwight MacDonald, Daniel Dubé
  • Pathogen surrogates based on encapsulated tagged DNA for verification of sanitation and wash water systems for fresh produce
    Patent number: 10962512
    Abstract: A pathogen surrogate, formed by a DNA tag or bar code and a carrier, is described for use in the validation and verification of sanitation, such as in food processing operations and for wash water systems for fresh produce. The carrier material is selected so that the pathogen surrogate mimics the behavior of a pathogen when subjected to a sanitation operation. One or more surrogates can be introduced in to an environment, which is then subjected to sanitation process, followed by a detection process using the DNA tag of the surrogate.
    Type: Grant
    Filed: February 25, 2016
    Date of Patent: March 30, 2021
    Assignee: Safetraces, Inc.
    Inventors: Antonios Zografos, George Roy Farquar, John Mark Carter