Patents Examined by Joseph G Dauner
  • Biomarker identification
    Patent number: 10167511
    Abstract: Disclosed are method and apparatus for identifying biomarkers and in particular for identifying biomarkers for use in making clinical assessments, such as early diagnostic, diagnostic, disease stage, disease severity, disease subtype, response to therapy or prognostic assessments. In one particular example, the techniques are applied to allow assessments of patients suffering from, suspected of suffering from, or with clinical signs of SIRS (Systemic Inflammatory Response Syndrome) being either infection-negative SIRS or infection-positive SIRS.
    Type: Grant
    Filed: July 2, 2016
    Date of Patent: January 1, 2019
    Assignee: IMMUNEXPRESS PTY LTD
    Inventors: Richard Bruce Brandon, Leo Charles McHugh
  • Detection of genetic abnormalities
    Patent number: 10167508
    Abstract: The present invention provides assay systems and related methods for determining genetic abnormalities in mixed samples comprising cell free DNA from both normal and putative genetically atypical cells. Exemplary mixed samples for analysis using the assay systems of the invention include samples comprising both maternal and fetal cell free DNA and samples that contain DNA from normal cells and circulating cancerous cells.
    Type: Grant
    Filed: February 29, 2012
    Date of Patent: January 1, 2019
    Assignee: ARIOSA DIAGNOSTICS, INC.
    Inventors: Ken Song, Arnold Oliphant, John Stuelpnagel, Andrew Sparks
  • Hydroxymethyl linkers for labeling nucleotides
    Patent number: 10161000
    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: April 20, 2016
    Date of Patent: December 25, 2018
    Assignee: QIAGEN WALTHAM, INC.
    Inventor: Jerzy Olejnik
  • Biomarkers for use in colorectal cancer
    Patent number: 10155991
    Abstract: The present invention provides assays, methods and kits that may be used to assess colorectal cancer (CRC) in a subject in relation to diagnosis, prognosis and treatment evaluation, using blood samples.
    Type: Grant
    Filed: August 15, 2013
    Date of Patent: December 18, 2018
    Inventor: Xueliang James Xia
  • Devices and methods for determining molecular structure
    Patent number: 10151748
    Abstract: A method of determining the structure of a molecule can include labeling a first location on the molecule with a first DNA strand, and measuring a force-time waveform using the twisting of a T-shaped atomic force microscope cantilever scanning across the molecule. The cantilever can include a DNA probe having a first region that is complimentary to the first DNA strand.
    Type: Grant
    Filed: April 15, 2016
    Date of Patent: December 11, 2018
    Assignee: THE TRUSTEES OF COLUMBIA UNIVERSITY IN THE CITY OF NEW YORK
    Inventors: Ozgur Sahin, Duckhoe Kim
  • Assay systems for genetic analysis
    Patent number: 10131937
    Abstract: The present invention provides assays systems and methods for detection of chromosomal abnormalities and status of single loci associated with monogenic or polygenic traits in a sample containing nucleic acids from a maternal and a fetal source.
    Type: Grant
    Filed: November 10, 2011
    Date of Patent: November 20, 2018
    Assignee: ARIOSA DIAGNOSTICS, INC.
    Inventors: Andrew Sparks, Arnold Oliphant, Jacob Zahn, Ken Song, John Stuelpnagel
  • Genes with codon mutations encoding xylanase
    Patent number: 10131895
    Abstract: The present disclosure provides for a polynucleotide sequences encoding a xylanase. More specifically, the present disclosure provides for polynucleotide sequences with codon mutations encoding a xylanase.
    Type: Grant
    Filed: March 10, 2014
    Date of Patent: November 20, 2018
    Assignee: BASF Enzymes LLC
    Inventor: Xuqiu Tan
  • Assay systems for genetic analysis
    Patent number: 10131951
    Abstract: The present invention provides assay systems and methods for detection of copy number variation at one or more loci and polymorphism detection at one or more loci in a mixed sample from an individual.
    Type: Grant
    Filed: July 8, 2016
    Date of Patent: November 20, 2018
    Assignee: ARIOSA DIAGNOSTICS, INC.
    Inventors: Andrew Sparks, Arnold Oliphant, Jacob Zahn, Ken Song, John Stuelpnagel
  • Purification process of nascent DNA
    Patent number: 10131913
    Abstract: A method for initiating the replication of a deoxyribonucleic acid molecule includes inserting into the DNA at least one nucleic acid molecule representing a multicellular DNA replication origin. The replication origin contains at least nine nucleotides and contains at least three uninterrupted origin repeating elements (ORE), each ORE having the sequence N3GN4, wherein N3 is T or G and N4 is G or C. The method can confer autonomous replication properties to a non-self-replicating DNA molecule. A process for preparing a vector for use in said methods is also presented.
    Type: Grant
    Filed: April 8, 2015
    Date of Patent: November 20, 2018
    Assignee: CENTRE NATIONAL DE LA RECHERCHE SCIENTIFIQUE
    Inventors: Marcel Mechali, Philippe Coulombe, Christelle Cayrou, Eric Rivals, Paulina Prorok
  • Compositions and methods for diagnosing diseases and disorders associated with ? cell death
    Patent number: 10125394
    Abstract: The present invention relates to compositions and methods for detecting cell death by detecting cell DNA in a biological sample. The invention relates the discovery that the presence of hypomethylated ? cell DNA outside of the pancreas of a subject is indicative of ? cell death. Thus, in one embodiment, the invention is a method of detecting hypomethylated ? cell insulin DNA in a biological sample of a subject including the steps of: obtaining a biological sample from the subject, where the biological sample is obtained from outside of the subject's pancreas and where the biological sample contains ? cell insulin DNA; determining the methylation status of at least one of the CpG dinucleotides in the ? cell insulin DNA, where when at least one of the CpG dinucleotides in the ? cell insulin DNA is determined to be unmethylated, the hypomethylated ? cell insulin DNA is detected.
    Type: Grant
    Filed: June 22, 2012
    Date of Patent: November 13, 2018
    Assignee: YALE UNIVERSITY
    Inventors: Kevan C. Herold, Eitan Moshe Akirav
  • Method of detecting nucleic acids, method of optically observing sample and fluorescent substance
    Patent number: 10081830
    Abstract: [Object] A method of detecting nucleic acids easily without requiring complicated operations such as mixing of liquids and cleaning within micro-scale flow channels. [Solving Means]A method of detecting nucleic acids including the steps of bringing a sample containing the nucleic acids into contact with copper, and detecting fluorescence emitted from the sample is provided. According to the method of detecting nucleic acids, only by bringing the sample containing nucleic acids into contact with copper, the fluorescence derived from the composite of the nucleic acids and copper can be easily detected.
    Type: Grant
    Filed: September 6, 2016
    Date of Patent: September 25, 2018
    Assignee: SONY CORPORATION
    Inventor: Nao Nitta
  • Stable nanoreporters
    Patent number: 10077466
    Abstract: The present invention relates to compositions and methods for detection and quantification of individual target molecules in biomolecular samples. In particular, the invention relates to improved, stable nanoreporter probes that are capable of binding to and identifying target molecules based on the probes' uniquely detectable signal. Methods for identifying target-specific sequences for inclusion in the probes are also provided, as are methods of making and using such probes. Polynucleotide sequences of certain nanoreporter components are also provided. The probes can be used in diagnostic, prognostic, quality control and screening applications.
    Type: Grant
    Filed: March 28, 2016
    Date of Patent: September 18, 2018
    Assignee: NanoString Technologies, Inc.
    Inventors: Philippa Jane Webster, Timothy Dahl
  • System for operating a system for the integrated and automated analysis of DNA or protein
    Patent number: 10073107
    Abstract: A system for the integrated and automated analysis of DNA or protein, including a single-use cartridge, with an analysis device having a control device, and devices for capturing and processing signals, the control device carrying out a completely automatic process and evaluation of molecular diagnostic analysis via single-use cartridges (Lab-on-a-Chip). Controlling of an analysis process, which occurs in the cartridge, involves the subsequent displacement and thermostatization of liquids with a first device, and with a second device the signals which are obtained during the analysis are processed. The first and the second devices are synchronized in such a manner that the analysis process of the sample can be carried out in a totally integrated manner thus producing an immediate result.
    Type: Grant
    Filed: August 18, 2015
    Date of Patent: September 11, 2018
    Assignee: Boehringer Ingelheim Vetmedica GmbH
    Inventors: Walter Gumbrecht, Peter Paulicka
  • Lysis buffer and methods for extraction of DNA from plant material
    Patent number: 10072284
    Abstract: The present invention is generally directed to a lysis buffer for extraction of DNA from plant material and improved methods for extraction of DNA from plant material utilizing the novel lysis buffer. Advantageously, the lysis buffer of the present invention is suitable for use in connection with simpler analysis methods, while still providing suitable DNA yields and purities for analysis.
    Type: Grant
    Filed: June 20, 2013
    Date of Patent: September 11, 2018
    Assignee: Monsanto Technology LLC
    Inventors: Thomas R. Mertz, Jr., Saurabh Parikh, Julie Oermann, Tracey Hodge, Bryan Witherbee
  • Compositions and methods for inhibiting HMGB1 activation of melanocytes
    Patent number: 10054582
    Abstract: A method of identifying a test agent as a skin tone agent. The method includes determining the level of high-mobility group protein B1 (HMGB1), messenger RNA associated with the expression and/or regulation of HMGB1 (HMGB1 mRNA), and/or micro-RNA associated with the expression and/or regulation of HMGB1 (HMGB1 miRNA) present in the test sample, and identifying the test agent as a skin tone agent when there is no increase in HMGB1 level, a downregulation in transcription of HMGB1 mRNA, and/or an upregulation of HMGB1 miRNA. The method also includes identifying a test agent as a skin tone agent when the test agent inhibits or prevents an increase in melanocyte dendricity and/or body size caused by HMGB1.
    Type: Grant
    Filed: September 8, 2015
    Date of Patent: August 21, 2018
    Assignee: The Procter & Gamble Company
    Inventors: Leo Timothy Laughlin, II, Tomohiro Hakozaki, Wenzhu Zhao
  • Measuring a level of a 5-hydroxymethylcytosine in a sample from a subject having a cancer or suspected of having cancer
    Patent number: 10041938
    Abstract: Provided herein are methods and kits for measuring a level of a 5-hydroxymethylcytosine in a nucleotide sequence from a subject, wherein the subject is a subject having a cancer or suspected of having cancer.
    Type: Grant
    Filed: February 23, 2017
    Date of Patent: August 7, 2018
    Assignees: THE CHILDREN'S MEDICAL CENTER CORPORATION, THE UNITED STATES OF AMERICA, AS REPRESENTED BY THE SECRETARY, DEPARTMENT OF HEALTH AND HUMAN SERVICES
    Inventors: Anjana Rao, Mamta Tahiliani, Kian Peng Koh, Suneet Agarwal, Aravind Iyer
  • Detecting gastrointestinal neoplasms
    Patent number: 10030272
    Abstract: Provided herein is technology for gastrointestinal neoplasia screening and particularly, but not exclusively, to methods, compositions, and related uses for detecting the presence of gastrointestinal neoplasm, and classifying the site location of such a gastrointestinal neoplasm (e.g., a colorectal region, a pancreaticobiliary region, a gastroesophageal region).
    Type: Grant
    Filed: February 26, 2016
    Date of Patent: July 24, 2018
    Assignee: Mayo Foundation for Medical Education and Research
    Inventors: David A. Ahlquist, William R. Taylor, John B. Kisiel, Douglas W. Mahoney, Tracy C. Yab
  • Hybridization probes and methods
    Patent number: 10030268
    Abstract: The present invention relates to compositions and methods for detection, analysis, and treatment of nucleic acids. In particular, the present invention relates to compositions and methods for generating and using hybridization probes.
    Type: Grant
    Filed: November 11, 2015
    Date of Patent: July 24, 2018
    Assignee: ABBOTT MOLECULAR INC.
    Inventors: John Russell, Ekaterina Pestova, Neeraj Adya
  • Selective oxidation of 5-methylcytosine by TET-family proteins
    Patent number: 10031131
    Abstract: The present invention provides for novel methods for regulating and detecting the cytosine methylation status of DNA. The invention is based upon identification of a novel and surprising catalytic activity for the family of TET proteins, namely TET1, TET2, TET3, and CXXC4. The novel activity is related to the enzymes being capable of converting the cytosine nucleotide 5-methylcytosine into 5-hydroxymethylcytosine by hydroxylation.
    Type: Grant
    Filed: February 23, 2017
    Date of Patent: July 24, 2018
    Assignees: THE CHILDREN'S MEDICAL CENTER CORPORATION, THE UNITED STATES OF AMERICA, AS REPRESENTED BY THE SECRETARY, DEPARTMENT OF HEALTH AND HUMAN SERVICES
    Inventors: Anjana Rao, Mamta Tahiliani, Kian Peng Koh, Suneet Agarwal, Aravind Iyer
  • Methods and kits for detection of methylation status
    Patent number: 10023909
    Abstract: The present invention relates to methods and kits for the detection of 5-hydroxymethylcytosine (5hmC) and/or 5-methylcytosine (5meC). In some embodiments, the present invention relates to methods and kits for detection of 5hmC and/or 5meC in nucleic acid (e.g., DNA, RNA). In some embodiments, the present invention relates to detection of 5hmC in genomic DNA, e.g., mammalian genomic DNA.
    Type: Grant
    Filed: December 13, 2012
    Date of Patent: July 17, 2018
    Assignee: OSLO UNIVERSITETSSYKEHUS HF
    Inventors: John Arne Dahl, Adam Brian Robertson, Arne Klungland, Linda Ellevog