Patents Examined by T. D. Wessendorf
  • Methods of constructing and screening diverse expression libraries
    Patent number: 7270969
    Abstract: The present invention provides novel methods for producing nucleic acid fragment libraries that express highly diverse peptides or protein domains and, in particular, methods for producing nucleic acid fragment libraries wherein the nucleic acid fragments of the libraries are derived from two or more diverse characterized genomes.
    Type: Grant
    Filed: February 21, 2003
    Date of Patent: September 18, 2007
    Assignee: Phylogica Limited
    Inventors: Paul Michael Watt, Wayne Robert Thomas, Richard Hopkins
  • Peptides for use in culture media
    Patent number: 7267983
    Abstract: The present invention provides peptides libraries which are useful for rapid identification of biologically active compounds. The invention further provides peptides which include cell-growth affecting peptides and peptides which enhance or inhibit production of cellular proteins. Many of the peptides of the invention may be produced in large quantity by recombinant techniques and formulated in culture medium to produce the desired effect on cultured cells and tissues. Certain of the libraries of the invention and the peptides identified in them are particularly useful in concatemer-based recombinant expression methods.
    Type: Grant
    Filed: May 7, 2004
    Date of Patent: September 11, 2007
    Assignee: Becton, Dickinson and Company
    Inventors: Perry D. Haaland, Douglas B. Sherman, Robert L. Campbell, Walter William Stewart, Sheila A. Lloyd, Ann Hart Erickson, legal representative, Bruce Wayne Erickson, deceased
  • Method for screening combinational bead library; ligands for cancer cells
    Patent number: 7262269
    Abstract: The invention includes a cell-growth-on-bead assay for screening a one-bead-one-compound combinatorial bead library to identify synthetic ligands for cell attachment and growth or proliferation of epithelial and non-epithelial cells. Cells are incubated with a compound bead library for 24 to 72-hours, allowing them to attach and grow on the beads. Those beads with cells growing are removed, and the ligand on the bead is identified. Also provided are ligands specific for cancer cells.
    Type: Grant
    Filed: October 8, 2003
    Date of Patent: August 28, 2007
    Assignee: The Regents of University of California
    Inventors: Kit S. Lam, Derick H. Lau
  • Intrabodies with defined framework that is stable in a reducing environment and applications thereof
    Patent number: 7258985
    Abstract: A method for the isolation of CDRs in a defined framework that is stable and soluble in reducing environment is described as well as thus obtainable scFv. Starting from such scFv with defined framework a scFv library can be generated wherein the framework is conserved while at least one complementary determining region (CDR) is randomized. Such library, e.g. in yeast cells, is suitable for screening for antibody/CDR-interactions or for screening for antibodies.
    Type: Grant
    Filed: December 28, 2000
    Date of Patent: August 21, 2007
    Assignee: Esbatech AG
    Inventors: Adrian Auf Der Maur, Alcide Barberis, Dominik Escher
  • Intrabodies with defined framework that is stable in a reducing environment and applications thereof
    Patent number: 7258986
    Abstract: A method for the isolation of CDRs in a defined framework that is stable and soluble in reducing environment is described as well as thus obtainable scFv. Starting from such scFv with defined framework a scFv library can be generated wherein the framework is conserved while at least one complementary determining region (CDR) is randomized. Such library, e.g. in yeast cells, is suitable for screening for antibody/CDR-interactions or for screening for antibodies.
    Type: Grant
    Filed: December 18, 2000
    Date of Patent: August 21, 2007
    Assignee: ESBATech AG
    Inventors: Adrian Auf Der Maur, Alcide Barberis, Dominik Escher
  • In vivo production of cyclic peptides for inhibiting protein—protein interaction
    Patent number: 7252952
    Abstract: The present invention relates to methods and compositions utilizing inteins to generate libraries of cyclic peptides in vivo. The prevent invention also relates to methods for inhibiting protein-protein interaction.
    Type: Grant
    Filed: April 23, 2003
    Date of Patent: August 7, 2007
    Assignee: Rigel Pharmaceuticals, Inc.
    Inventors: James B. Lorens, Todd M. Kinsella, Todd Pray, Mark K. Bennett
  • Biomolecule arrays
    Patent number: 7244598
    Abstract: Array systems that facilitate the simultaneous monitoring of many interactions between biological molecules and the analysis of cellular protein interactions with high throughput. The present invention provides methods and arrays for analyzing biochemical pathways by forming an array of immobilized biomolecules; exposing the array to biomolecules in solution; and detecting modification of the immobilized biomolecules, modification of the biomolecules in solution, and/or binding of biomolecules in solution to immobilized biomolecules.
    Type: Grant
    Filed: August 14, 2001
    Date of Patent: July 17, 2007
    Assignee: Surface Logix, Inc.
    Inventor: David Duffy
  • Structured peptide scaffold for displaying turn libraries on phage
    Patent number: 7235626
    Abstract: The invention is directed to a model system for structure-activity analysis of peptide or protein molecules involved in important biological processes. Provided by the invention are combinatorial peptide libraries comprising disulfide-constrained cyclic peptides with sequences favorable for energy stabilized conformations. A preferred embodiment of the invention is directed to peptides containing ?-turn tetrapeptide that form structured ?-hairpin scaffold in solution. Methods of selecting and using such peptides are provided herein, which are useful for mimicking in vivo molecular interactions and designing therapeutic agents. Thus, the invention has profound utility for biological studies and drug development.
    Type: Grant
    Filed: June 13, 2000
    Date of Patent: June 26, 2007
    Assignee: Genentech, Inc.
    Inventors: Andrea G. Cochran, Nicholas J. Skelton, Melissa A. Starovasnik
  • Hairpin peptides with a novel structural motif and methods relating thereto
    Patent number: 7229777
    Abstract: The invention is directed to a model system for structure-activity relationship analysis of peptide or protein molecules involved in important biological processes. Provided by the invention are combinatorial peptide libraries comprising peptides with a novel “tryptophan zipper” scaffold (trpzip) that forms stable ?-hairpin structure in solution. Methods of selecting and using such scaffold are provided herein, which are useful for mimicking native protein structures and interactions and designing therapeutic agents. Thus, the invention has profound utility for biological studies and drug development.
    Type: Grant
    Filed: April 12, 2004
    Date of Patent: June 12, 2007
    Assignee: Genentech, Inc.
    Inventors: Andrea G. Cochran, Melissa A. Starovasnik, Nicholas Skelton
  • Methods and construction and screening of libraries of chemokine variants
    Patent number: 7211564
    Abstract: The present invention provides a method for the design and/or the selection of agonist or antagonist chemokine variants combining a phage display technology and a screening on living cells expressing the receptor of the corresponding native chemokine. It also provides RANTES variants having agonist properties towards said receptor, and methods for preventing and/or curing viral diseases, as well as clues for preventing and/or curing inflammatory or malignant diseases.
    Type: Grant
    Filed: March 4, 2004
    Date of Patent: May 1, 2007
    Assignees: Universite Pierre et Marie Curie (ParisVI), Universite De Geneve
    Inventors: Guy Gorochov, Oliver Hartley, Karim Dorgham, Patrice Debre, Robin Offord
  • Method for identifying inhibitors of G protein coupled receptor signaling
    Patent number: 7208279
    Abstract: This invention relates to methods for identifying peptides and other compounds which block G protein coupled receptor mediated signaling with high affinity and specificity. Assays developed in conjunction with these methods also are disclosed.
    Type: Grant
    Filed: May 11, 2001
    Date of Patent: April 24, 2007
    Assignee: Caden Biosciences, Inc.
    Inventors: Annette Gilchrist, Heidi M. Hamm
  • Randomly ordered arrays and methods of making and using
    Patent number: 7195913
    Abstract: Arrays including microparticles having probe and marker moieties are used for the detection of a target in a sample. Microparticles are randomly immobilized on at least a portion of a substrate. A detection scheme is performed to detect the marker associated with the microparticle and the identity of the probe, and any target bound to the probe.
    Type: Grant
    Filed: October 5, 2001
    Date of Patent: March 27, 2007
    Assignee: SurModics, Inc.
    Inventors: Patrick E. Guire, Kristin S. Taton, John V. Wall
  • Synthesis of compounds and libraries of compounds
    Patent number: 7183059
    Abstract: A method of generating a compound having at least one biological activity of a peptide. The method includes identifying a biologically active peptide, providing a first monomer which contains terminal reactive moieties and at least one functionalizable group, providing a second monomer which contains terminal reactive moieties and at least one functionalizable group, and reacting first and second monomer under stereo-and/or regiochemically controlled conditions to yield a compound in which the monomers are attached by way of terminal reactive moieties.
    Type: Grant
    Filed: September 7, 2001
    Date of Patent: February 27, 2007
    Assignee: President and Fellows of Harvard College
    Inventors: Gregory L. Verdine, Milan Chytil, Mary T. Didiuk, Tiffany Malinky
  • Peptides for use in culture media
    Patent number: 7179635
    Abstract: The present invention provides peptides libraries which are useful for rapid identification of biologically active compounds. The invention further provides peptides which include cell-growth affecting peptides and peptides which enhance or inhibit production of cellular proteins. Many of the peptides of the invention may be produced in large quantity by recombinant techniques and formulated in culture medium to produce the desired effect on cultured cells and tissues. Certain of the libraries of the invention and the peptides identified in them are particularly useful in concatemer-based recombinant expression methods.
    Type: Grant
    Filed: May 7, 2004
    Date of Patent: February 20, 2007
    Assignee: Becton, Dickinson and Company
    Inventors: Perry D. Haaland, Douglas B. Sherman, Robert L. Campbell, Walter William Stewart, Sheila A. Lloyd, Ann Hart Erickson, legal representative, Bruce Wayne Erickson, deceased
  • Methods and compositions for peptide and protein labeling
    Patent number: 7172877
    Abstract: The invention provides compositions and methods of use thereof for labeling peptide and proteins in vitro or in vivo. The methods described herein employ biotin ligase mutants and biotin analogs recognized by such mutants.
    Type: Grant
    Filed: January 9, 2004
    Date of Patent: February 6, 2007
    Assignee: Massachusetts Institute of Technology
    Inventor: Alice Y. Ting
  • Differential labeling for quantitative analysis of complex protein mixtures
    Patent number: 7166436
    Abstract: The present invention relates to a method of simultaneously identifying and determining the levels of expression of cysteine-containing proteins in normal and perturbed cells, a method for proteomic analysis, a process for preparing fusion proteins, and compounds and reagents related thereto.
    Type: Grant
    Filed: August 1, 2002
    Date of Patent: January 23, 2007
    Assignee: Syngenta Participations, AG
    Inventors: Paul Haynes, Jing Wei, John Yates, Nancy Andon
  • High-throughput screening of expressed DNA libraries in filamentous fungi
    Patent number: 7122330
    Abstract: The invention provides a method for the expression of exogenous DNA libraries in filamentous fungi. The fungi are capable of processing intron-containing eukaryotic genes, and also can carry out post-translational processing steps such as glyclosylation and protein folding. The invention provides for the use of fungi with altered morphology, which permits high-throughput screening and directed molecular evolution of expressed proteins. The same transformed fungi may be used to produce larger quantities of protein for isolation, characterization, and application testing, and may be suitable for commercial production of the protein as well.
    Type: Grant
    Filed: April 13, 2001
    Date of Patent: October 17, 2006
    Inventors: Mark A. Emalfarb, Peter J. Punt, Cornelia van Zeijl, Cornelius van den Hondel
  • Immunogenic formulation and process for preparation thereof
    Patent number: 7118874
    Abstract: A process is disclosed for preparation of a immunogenic peptide mixture in a single synthesis. The peptide mixture collectively represents the in vivo variability seen in immunogenic epitopes from a pathogen. The mixture is termed a hypervariable epitope construct (HEC). Immunization with a HEC evokes broadly reactive immunity against divergent strains of a pathogen upon which the HEC is based.
    Type: Grant
    Filed: February 8, 2002
    Date of Patent: October 10, 2006
    Assignee: Variation Biotechnologies Inc.
    Inventor: José Vidal Torres
  • In vivo production of cyclic peptides
    Patent number: 7105341
    Abstract: The compositions relate to retroviral vectors encoding intein containing polypeptides which, when expressed in an eukaryotic cell, are capable of generating cyclic peptides. The retroviral vectors are used in methods for producing cyclic peptides and for identifying peptides capable of altering cellular phenotypes.
    Type: Grant
    Filed: March 6, 2001
    Date of Patent: September 12, 2006
    Assignee: Rigel Pharmaceuticals. Inc.
    Inventor: Todd M. Kinsella
  • Kahalalide F and compositions and uses thereof
    Patent number: RE39496
    Abstract: Kalahide Kahalalide F, of formula I below, may be isolated from a sacoglossan.
    Type: Grant
    Filed: August 14, 2003
    Date of Patent: February 27, 2007
    Assignee: PharmaMar, S.A.
    Inventors: Alice E. D. Scheuer, Mark T. Hamann, Dolores G. Gravalos, Paul J. Scheuer