Patents Examined by Christopher M. Gross
  • Lipid probes and uses thereof
    Patent number: 10168342
    Abstract: Disclosed herein are methods, compositions, probes, assays and kits for identifying a lipid binding protein as a drug binding target. Also disclosed herein are methods, compositions, and probes for mapping a ligand binding site on a lipid binding protein, identification of lipid binding proteins, generating drug-lipid binding protein profiles, high throughput drug screening, and identification of drugs as potential lipid binding protein ligands.
    Type: Grant
    Filed: March 25, 2016
    Date of Patent: January 1, 2019
    Assignee: The Scripps Research Institute
    Inventors: Benjamin F. Cravatt, Micah J. Niphakis, Kenneth Lum, Bruno Correia, Armand Cognetta, Jonathan Hulce
  • High throughput yeast two-hybrid screening method and reagent kit
    Patent number: 10155941
    Abstract: An approach to collect and interpret results from Y2H screens uses high-throughput next-generation sequencing technologies. In particular, this system is appropriate to generate comprehensive profiles of protein-protein interactions (PPIs), allowing also a side-by-side comparison of specific PPI patterns with that from control samples and allows a direct comparison of PPI patterns displayed by proteins in their wild-type and various mutant conformations. While sample preparation relies to the most part on established transcriptome and RNA sequencing procedures, this invention also encloses a specific DNA preparation step to sequester irrelevant and contaminating sequences from the sample.
    Type: Grant
    Filed: August 1, 2013
    Date of Patent: December 18, 2018
    Inventors: Bernhard Suter, Lu Zhang
  • Tyrosine kinase biosensors and methods of use
    Patent number: 10150984
    Abstract: Disclosed are compositions and methods for measuring tyrosine kinase activity.
    Type: Grant
    Filed: November 22, 2016
    Date of Patent: December 11, 2018
    Inventors: Laurie L Parker, Andrew Michael Lipchik, Scott Charles Bolton
  • Manipulation of microparticles in microfluidic systems
    Patent number: 10138517
    Abstract: An array of transportable particle sets is used in a microfluidic device for performing chemical reactions in the microfluidic device. The microfluidic device comprises a main channel and intersecting side channels, the main channel and side channels forming a plurality of intersections. The array of particle sets is disposed in the main channel, and the side channels are coupled to reagents. As the particle sets are transported through the intersections of the main channel and the side channels, reagents are flowed through the side channels into contact with each array member (or selected array members), thereby providing a plurality of chemical reactions in the microfluidic system.
    Type: Grant
    Filed: June 6, 2017
    Date of Patent: November 27, 2018
    Assignee: CALIPER LIFE SCIENCES, INC.
    Inventors: Tammy Burd Mehta, Anne R. Kopf-Sill, J. Wallace Parce, Andrea W. Chow, Luc J. Bousse, Michael R. Knapp, Theo T. Nikiforov, Steve Gallagher
  • Means and methods for producing anti-proteome antibodies and identifying conserved unique or differentially expressing molecules of organisms
    Patent number: 10114025
    Abstract: Disclosed are methods for identifying one or more amino acid molecules and nucleic acid molecules encoding such amino acid molecules of at least two proteomes that are conserved, unique or express at higher or lower levels in at least one of the proteomes. Expression libraries are used that produce the proteome, and in one embodiment, may produce the proteome from at least one cDNA expression library in one to five reactions. Anti-proteome antibodies are prepared that selectively bind to one of the proteomes and binding with at least one second proteome compared.
    Type: Grant
    Filed: August 17, 2015
    Date of Patent: October 30, 2018
    Assignee: Pathovacs, Incorporated
    Inventor: Manohar John
  • Single cell analysis using secondary ion mass spectrometry
    Patent number: 10114004
    Abstract: A method of analyzing a population of cells is disclosed. In certain embodiments, the method includes i) obtaining an array of cells on a substrate, wherein the cells are labeled with one or more mass tags and are separated from one another, ii) measuring, using secondary ion mass spectrometry (SIMS), the abundance of the one or more mass tags at a plurality of locations occupied by the cells, thereby generating, for each individual cell measured, a set of data, and iii) outputting the set of data for each of the cells analyzed. Also provided herein are systems that find use in performing the subject method. In some embodiments, the system is an automated system for analyzing a population of cells using SIMS.
    Type: Grant
    Filed: August 16, 2017
    Date of Patent: October 30, 2018
    Assignee: The Board of Trustees of the Leland Stanford Junior University
    Inventors: Garry P. Nolan, Sean C. Bendall, Robert M. Angelo
  • Methods of chemotype evolution
    Patent number: 10107798
    Abstract: Herein is described a method to rapidly screen a large chemical space for a compound that binds to a target protein through an iterative fragment assembly approach that can be performed at low reagent cost and without requiring purification of the assembled product. The method employs a library of test ligands each of which comprise a ‘bait’ molecule, which is known from prior art or prior screening to have some intrinsic affinity for the target protein, and a test moiety.
    Type: Grant
    Filed: March 25, 2009
    Date of Patent: October 23, 2018
    Assignee: SUNESIS PHARMACEUTICALS, INC.
    Inventors: Stig Hansen, Daniel Erlanson, Mark Cancilla
  • Devices and methods for thermally-mediated chemical reactions
    Patent number: 10106843
    Abstract: One aspect of the invention provides container for thermal cycling a plurality of samples in a microfluidic array. The container includes a plurality of walls defining an interior volume and a conductive member for heating the interior volume. Another aspect of the invention provides container for thermal cycling a plurality of samples in a microfluidic array. The container includes a plurality of walls defining an interior volume and a plurality of conductive members for heating an interior volume. Another aspect of the invention provides a container for thermal cycling a plurality of samples in a microfluidic array. The container includes a plurality of walls defining an interior volume and a first conductive member located in the interior volume and adapted to contact a first end of the microfluidic array.
    Type: Grant
    Filed: November 6, 2015
    Date of Patent: October 23, 2018
    Assignee: Life Technologies Corporation
    Inventors: Colin J. H. Brenan, Thomas B. Morrison, Tanya S. Kanigan
  • Substrate independent copolymers for biofunctionalization
    Patent number: 10100163
    Abstract: The present invention provides crosslinked epoxy-functional copolymer films and microarrays built from the crosslinked epoxy-functional copolymer films. Microarrays incorporating the copolymers include a substrate on which a film of the crosslinked epoxy-functional copolymer is disposed and target molecules bound to the copolymer film. The crosslinked polymer films are well-suited for use as scaffolds for target molecules in microarrays because they provide a high density of binding sites for the target molecules, are mechanically stable, and may be coated onto a wide range of substrates.
    Type: Grant
    Filed: May 28, 2015
    Date of Patent: October 16, 2018
    Assignee: Wisconsin Alumni Research Foundation
    Inventor: Padma Gopalan
  • Genomic-scaled nucleic acid synthesis, and other combinatorial syntheses
    Patent number: 10099196
    Abstract: Provided is a method of synthesis comprising: (I) providing separate reaction sequences to TABs; (II) utilizing reaction vessels configured to react a separate combinatorial building block with a moiety on a surface of a TAB; and (III) operating one or more TAB sorters comprising a TAB reader, a sorting tree comprising valves or switches and sorting nodes, and a monitor configured to detect TAB location, wherein the operating comprises serially conducting: (a) reacting distinct combinatorial building blocks in the reaction chambers with surfaces of TABs distributed in the reaction chambers; (b) operating a controller to operate the TAB sorters to segregate the TABs to allocations appropriate for the next assigned reaction, the operating including recycling TABs with ambiguous identity back through the sorter; and (c) repeating steps (a) and (b) as needed to complete 30% or more of the assigned sequences.
    Type: Grant
    Filed: December 17, 2015
    Date of Patent: October 16, 2018
    Assignee: PharmaSeq, Inc.
    Inventors: Wlodek Mandecki, Efrain “Frank” Rodriguez, Ziye “Jay” Qian
  • Scaffolded peptidic libraries and methods of making and screening the same
    Patent number: 10093921
    Abstract: Scaffolded peptidic libraries and methods of screening the same for specific binding to a target protein are provided. Each library includes distinct peptidic compounds that include a scaffold domain and a distinct variable domain. A variety of libraries are provided where each library is based on an underlying peptidic scaffold having a structural motif. In some embodiments, the peptidic scaffold is a small protein having a protein-protein interaction surface. Libraries of polynucleotides that encode a variety of peptidic compounds are provided. These libraries find use in a variety of applications in which specific binding to target molecules, e.g., target proteins is desired. Also provided are methods of making the libraries and methods of screening the libraries for binding to a target.
    Type: Grant
    Filed: March 14, 2014
    Date of Patent: October 9, 2018
    Assignee: The Governing Council of the University of Toronto
    Inventors: Maruti Uppalapati, Sachdev S. Sidhu, Aaron Kerman
  • Identifying antigen clusters for monitoring a global state of an immune system
    Patent number: 10082503
    Abstract: Method, system and an article of manufacture for clustering and thereby identifying predefined antigens reactive with undetermined immunoglobulins of sera derived from patient subjects in need of diagnosis of disease or monitoring of treatment.
    Type: Grant
    Filed: March 13, 2014
    Date of Patent: September 25, 2018
    Assignee: YEDA RESEARCH AND DEVELOPMENT CO. LTD.
    Inventors: Irun R. Cohen, Eytan Domany, Francisco Javier Quintana, Guy Hed, Gad Getz
  • Mapping of genomic interactions
    Patent number: 10066227
    Abstract: The present invention relates to genomic analysis. In particular, the present invention provides methods and compositions for mapping genomic interactions.
    Type: Grant
    Filed: May 24, 2017
    Date of Patent: September 4, 2018
    Assignee: University of Massachusetts
    Inventors: Job Dekker, Josee Dostie
  • PS-SPCL searching apparatus and method using surface plasmon resonance
    Patent number: 10048260
    Abstract: A Positional Scanning-Synthetic Peptide Combinatorial Library (PS-SPC) searching apparatus and method using Surface Plasmon Resonance (SPR) are provided. The method includes spotting and fixing each of a plurality of peptide pools to a top of one thin metal film, inputting specific materials to the top of the thin metal film, applying a TM-mode light to a bottom of the thin metal film and exciting SPR for the thin metal film, and detecting a TM mode reflected light reflected from the thin metal film and displaying the detected light as a two-dimensional image.
    Type: Grant
    Filed: November 6, 2013
    Date of Patent: August 14, 2018
    Assignee: ELECTRONICS AND TELECOMMUNICATIONS RESEARCH INSTITUTE
    Inventors: Yo Han Choi, Moon Youn Jung, Seon Hee Park
  • In situ chemical patterning
    Patent number: 10046293
    Abstract: Provided herein are methods and devices for performing in situ patterned chemistry for synthesizing and preparing peptide arrays. The invention provides a reproducible and scalable platform that can be potentially used to monitor the health of a plurality of individuals.
    Type: Grant
    Filed: October 17, 2013
    Date of Patent: August 14, 2018
    Assignee: ARIZONA BOARD OF REGENTS, A BODY CORPORATE OF THE STATE OF ARIZONA
    Inventors: Neal Woodbury, Stephen Albert Johnston
  • De novo design of allosteric proteins
    Patent number: 10041065
    Abstract: Methods and compositions for making and isolating allosteric DNA binding proteins that bind to one or more allosteric effectors to induce a conformation change in the proteins are provided.
    Type: Grant
    Filed: June 21, 2017
    Date of Patent: August 7, 2018
    Assignee: President and Fellows of Harvard College
    Inventors: Srivatsan Raman, Noah D. Taylor, George M. Church
  • Methods for detecting enzyme activity using fluorescence lifetime imaging
    Patent number: 10023902
    Abstract: Disclosed are methods of detecting enzymatic activity on a fluorophore-labeled substrate using by monitoring the fluorescence lifetime of the fluorophore.
    Type: Grant
    Filed: September 13, 2013
    Date of Patent: July 17, 2018
    Inventors: Laurie Louise Parker, Joseph Maria Kumar Irudayarsaj, Andrew M. Lipchik, Nur Pradani Damayanti
  • Multi-sensor array compound and methods of use thereof
    Patent number: 10017525
    Abstract: The present invention is directed to a multi-sensor array compound including at least three chromophores, at least one receptor and an anchor. Contacting the compound of this invention with an analyte (such as carbohydrate) forms a complex with unique optical signature. The unique optical signature allows differentiating between carbohydrates, diagnosing diseases associated with the carbohydrate, and encoding information in an encoding system.
    Type: Grant
    Filed: July 16, 2013
    Date of Patent: July 10, 2018
    Assignee: YEDA RESEARCH AND DEVELOPMENT CO. LTD.
    Inventors: David Margulies, Bhimsen Rout
  • Chemical arrays and methods of using the same
    Patent number: 10017879
    Abstract: Methods and compositions for generating mixtures of product molecules from an initial chemical array are provided. In the subject methods, a chemical array of surface immobilized first moieties is subjected to cleavage conditions such that a composition of solution phase first moieties is produced. The resultant composition of solution phase first moieties is then contacted with one or more reactants to produce a mixture of product molecules that are different from the first moieties. Also provided are the arrays employed in the subject methods and kits for practicing the subject methods.
    Type: Grant
    Filed: May 26, 2011
    Date of Patent: July 10, 2018
    Assignee: AGILENT TECHNOLOGIES, INC.
    Inventors: Mel N. Kronick, Eric M. Leproust
  • Phage microarray profiling of the humoral response to disease
    Patent number: 10006023
    Abstract: The present invention relates to compositions and methods for cancer diagnostics, including but not limited to, cancer markers. In particular, the present invention provides methods and compositions for phage microarray profiling of cancer (e.g., prostate, lung, or breast cancer). The present invention further provides novel markers useful for the diagnosis, characterization, and treatment of cancers.
    Type: Grant
    Filed: January 12, 2016
    Date of Patent: June 26, 2018
    Assignee: THE REGENTS OF THE UNIVERSITY OF MICHIGAN
    Inventors: Arul M. Chinnaiyan, Xiaoju Wang