Patents by Inventor David Baker

David Baker has filed for patents to protect the following inventions. This listing includes patent applications that are pending as well as patents that have already been granted by the United States Patent and Trademark Office (USPTO).

  • Patent number: 8754034
    Abstract: The invention provides methods for designing peptides that inhibit aggregation in target polypeptides. The candidate inhibitory peptidic compounds have an oligomeric sequence that forms energetically-favorable interactions with the amino acid sequence of the steric zipper region of the target protein, and also possess a zipper-disrupting feature that disrupt the peptide stacking at the steric zipper region. This method can be used to obtain inhibitory peptides to disrupt fibril formation involving any protein for which a steric zipper sequence can be identified. The invention also provides inhibitory peptidic compounds, which can be used in pharmaceutical compositions and methods for treating polypeptide aggregation-associated diseases or conditions.
    Type: Grant
    Filed: February 8, 2010
    Date of Patent: June 17, 2014
    Assignees: The Regents of the University of California, University of Washington
    Inventors: David S. Eisenberg, Stuart A. Sievers, John Karanicolas, David Baker
  • Publication number: 20140155440
    Abstract: The present invention provides cysteine and cystine bioisosteres for the treatment of schizophrenia and drug addiction. The invention further encompasses pharmaceutical compositions containing such bioisosteres and methods of using the bioisosteres for treatment of schizophrenia and drug addiction.
    Type: Application
    Filed: January 7, 2014
    Publication date: June 5, 2014
    Applicants: MARQUETTE UNIVERSITY, UWM RESEARCH FOUNDATION, INC.
    Inventors: James M. Cook, David A. Baker, Edward Merle Johnson, II, Wenyuan Yin, Ranjit Singh Verma
  • Patent number: 8688427
    Abstract: The present invention provides enzyme catalysts for Diels-Alder reactions, including intermolecular Diels-Alder reactions, as well as protein scaffolds for making such enzyme catalysts. In other aspects, the invention provides methods of making the enzyme catalysts, including by de novo computational design. The present invention thereby provides enzyme catalysts capable of catalyzing a desired Diels-Alder reaction, including with a specified or desired stereo-selectivity.
    Type: Grant
    Filed: November 19, 2009
    Date of Patent: April 1, 2014
    Assignee: University of Washington
    Inventors: David Baker, Alexandre Zangellini, Justin Siegel, Jennifer St. Clair
  • Publication number: 20140041864
    Abstract: A method associated with the selection of tubulars for hydrocarbon production is described based upon evaluating the performance limits of threaded connections. Constituents of an evaluation group of threaded connections are determined and then a first group of the connections is evaluated via model analysis over a range of conditions. Then, physical testing on a first group of threaded connections in the evaluation group is conducted over that range of conditions. Once modeled, the results from the physical testing and the modeling analysis of the first group are compared to assess a characteristic performance factor for the first group. A second group of threaded connections are determined and the assessed performance factor from the first group is applied to a second group, and the performance limits of the second group are defined over the range of conditions based on this characteristic performance factor, without requiring testing the second group.
    Type: Application
    Filed: October 17, 2013
    Publication date: February 13, 2014
    Inventors: A.S. David Khemakhem, Mark W. Biegler, David A. Baker, Jason A. Burdette, Bruce A. Dale, John W. Mohr, Ismail Ceyhan, James Powers, James H. Myers, Marcus Asmann
  • Publication number: 20130338165
    Abstract: Methods of treating Parkinson's Disease comprising administering compounds that up-regulate cystine-glutamate exchange (system Xc?) and/or increase glutathione levels in the brain cells. Preferred compounds are cysteine/cystine prodrugs or N-acetyl cysteine (NAC) prodrugs.
    Type: Application
    Filed: June 17, 2013
    Publication date: December 19, 2013
    Inventors: David A. Baker, Daniel G. Lawton, Chad Beyer, Michael Neary
  • Patent number: 8590641
    Abstract: A method associated with the selection of tubulars for hydrocarbon production is described. In particular, the method is associated with the evaluation of performance limits of threaded connections. In this method, constituents of an evaluation group of threaded connections are determined via model analysis. Then, physical testing on a first group of threaded connections in the evaluation group is conducted. Modeling analysis on the first group and a second group of threaded connections is performed, wherein the second group are not physically tested. Once modeled, the results from the physical testing and the modeling analysis are compared to assess a characteristic performance factor for the first group. Then, the characteristic performance factor is applied to the second group, and the performance limits are defined based on this characteristic performance factor.
    Type: Grant
    Filed: November 20, 2006
    Date of Patent: November 26, 2013
    Assignee: ExxonMobil Upstream Research Company
    Inventors: A. S. David Khemakhem, Mark W. Biegler, David A. Baker, Jason A. Burdette, Bruce A. Dale, John W. Mohr, Ismail Ceyhan, James Powers, James H. Myers, Marcus Asmann
  • Publication number: 20130299180
    Abstract: Systems and methods for managing pressures present in an annular space defined between casing strings contained within a subterranean well. These systems and methods may include providing a pressure distribution casing that includes a plurality of pressure distribution passages and distributing fluids present within the annular space along a length of the pressure distribution casing and/or between the annular space and the subterranean formation using a portion of the plurality of pressure distribution passages. Pressure distribution passages may be present on an inner surface of the pressure distribution casing, on an outer surface of the pressure distribution casing, and/or within a wall of the pressure distribution casing and may distribute the fluids along the length of the pressure distribution casing without distributing the fluids across and/or through a wall of the pressure distribution casing, such as between the inner surface and the outer surface of the pressure distribution casing.
    Type: Application
    Filed: December 6, 2011
    Publication date: November 14, 2013
    Inventors: Bruce A. Dale, David A. Baker, Michael S. Chelf, Charles S. Yeh
  • Patent number: 8578769
    Abstract: A flow sensor and fastener assembly, is disclosed which includes at least the following modules: a sensor housing and a fastener element; wherein: the sensor housing is adapted to receive a flow-based sensor, e.g. a MEMS airflow sensor; the sensor housing includes a connection for transmitting sensing signals from a fitted flow-based sensor; the fastener element includes a head and a shank, at least part of the shank being externally threaded; the fastener element includes a bore extending through the whole length of the fastener element; and the bore is shaped at the head end of the fastener element to provide a sensor housing receiving part.
    Type: Grant
    Filed: November 12, 2009
    Date of Patent: November 12, 2013
    Assignee: Bae Systems PLC.
    Inventors: Martyn John Hucker, Graham Andrew Johnson, David Baker, Amir Rezai
  • Publication number: 20130280262
    Abstract: The present invention provides polypeptides and compositions thereof for treating or limiting respiratory syncytial virus infection, and computational methods for designing such polypeptides.
    Type: Application
    Filed: October 6, 2011
    Publication date: October 24, 2013
    Applicant: University of Washington Through Its Center For Commercialization
    Inventors: William R. Schief, Bruno E. Correia, David Baker
  • Publication number: 20130274441
    Abstract: Methods and systems for computationally designing self-assembling polypeptides are disclosed. A representation of a docked configuration of a symmetric protein architecture can be determined by a computing device configured to computationally symmetrically dock representations of protein building blocks within a representation of a symmetric protein architecture, where symmetrically docking a representation of a particular protein building block can include determining a configuration of the protein building blocks in three-dimensional space within the symmetric protein architecture configured to generate interfaces between building blocks suitable for computational protein interface design. The amino acid sequence of the docked protein building blocks can be computationally modified to specify protein-protein interfaces between the plurality of protein building blocks that are energetically favorable to drive self-assembly of a protein that includes the modified amino acid sequence.
    Type: Application
    Filed: March 13, 2013
    Publication date: October 17, 2013
    Applicants: The Regents of the University of California, University of Washington through its Center for Commercialization
    Inventors: David Baker, Neil King, William Sheffler, Todd Yeates
  • Publication number: 20130196359
    Abstract: Systems, compounds and methods for the conversion of C1 carbon compounds to higher carbon compounds useful for the generation of commodity compounds.
    Type: Application
    Filed: September 15, 2011
    Publication date: August 1, 2013
    Applicant: University of Washington through its Center for Commercialization
    Inventors: Justin Siegel, David Baker, Amanda Lee Smith, Mary E. Lidstrom, Catherine Louw
  • Patent number: 8459036
    Abstract: A nozzle is provided that can be used as part of an aircraft engine. In one form the nozzle includes an inner cowl and an outer cowl. The inner cowl can be actuated to a variety of positions. The outer cowl is piggybacked on the inner cowl and is initially retained in first position relative to the inner cowl with an outer cowl actuator. The outer cowl actuator can be commanded to release the outer cowl so that the outer cowl can be moved to a second position relative to the inner cowl. In one form the outer cowl actuator is an explosive bolt and a spring is provided to urge the outer cowl to the second position.
    Type: Grant
    Filed: November 30, 2009
    Date of Patent: June 11, 2013
    Assignee: Rolls-Royce Corporation
    Inventor: Von David Baker
  • Publication number: 20130143794
    Abstract: The present invention provides polypeptides according to the general formulas disclosed herein, which recognize and are strong binders to Influenza A hemagglutinin and can be used, for example, to treat and/or limit development of an influenza infection. The present invention further provides isolated nucleic acids encoding the polypeptides of the invention, recombinant expression vectors comprising the nucleic acids encoding the polypeptides of the invention operatively linked to a suitable control sequence, and recombinant host cells comprising the recombinant expression vectors of the invention. The present invention also provides antibodies that selectively bind to the polypeptides of the invention, and pharmaceutical compositions comprising one or more polypeptides according to the invention and a pharmaceutically acceptable carrier.
    Type: Application
    Filed: August 3, 2011
    Publication date: June 6, 2013
    Applicant: University of Washington through its Center for Commercialization
    Inventors: David Baker, Timothy A. Whitehead, Sarel Fleishman
  • Publication number: 20130123356
    Abstract: The present invention relates to a compound of formula (I), or a pharmaceutically acceptable salt thereof,
    Type: Application
    Filed: October 18, 2012
    Publication date: May 16, 2013
    Applicant: UNIVERSITY COLLEGE LONDON
    Inventors: Masahiro Okuyama, David Selwood, Cristina Visintin, David Baker, Gareth Pryce
  • Patent number: 8435997
    Abstract: The present invention provides cysteine prodrugs for the treatment of schizophrenia and drug addiction. The invention further encompasses pharmaceutical compositions containing prodrugs and methods of using the prodrugs and compositions for treatment of schizophrenia and drug addiction.
    Type: Grant
    Filed: October 4, 2010
    Date of Patent: May 7, 2013
    Assignees: Marquette University, UWM Research Foundation, Inc.
    Inventors: James M. Cook, Edward Merle Johnson, II, David A. Baker, Wenyuan Yin
  • Publication number: 20130008542
    Abstract: Various diaphragm valves and accessories therefore are disclosed herein which improve on existing diaphragm valves and accessories and overcome many of the shortcomings of same. Related methods to these valves and accessories and/or their manufacture, assembly or use are also disclosed.
    Type: Application
    Filed: July 5, 2012
    Publication date: January 10, 2013
    Inventors: Kevin M. Irwin, Steven L. Felde, Kenneth J. Skripkar, Samuel C. Walker, Russell Churchill, Edward David Baker, Oscar Pulgarin, JR., Zachary Steven Dean, Mustafa Mohammed A. Albahrani, Christopher D. Holt, Scott Kent Zimmerman, Peter Niess
  • Patent number: 8343487
    Abstract: Provided are methods for preparing culture medium that contains soluble hyaluronidases. The methods employ cells that contain a plurality of active copies of nucleic acid encoding the soluble hyaluronidase and a plurality of feedings and temperature changes, whereby the encoded soluble hyaluronidase is secreted into the cell culture medium.
    Type: Grant
    Filed: March 13, 2012
    Date of Patent: January 1, 2013
    Assignee: Halozyme, Inc.
    Inventors: David Baker, Louis H. Bookbinder
  • Patent number: 8340951
    Abstract: Disclosed herein are techniques for computationally designing enzymes. These techniques can be used to design variations of naturally occurring enzymes, as well as new enzymes having no natural counterparts. The techniques are based on first identifying functional reactive sites required to promote the desired reaction. Then, hashing algorithms are used to identify potential protein backbone structures (i.e., scaffolds) capable of supporting the required functional sites. These techniques were used to design 32 different protein sequences that exhibited aldol reaction catalytic function, 31 of which are defined in the Sequence Listing. Details of these 31 different synthetic aldolases are provided, including descriptions of how such synthetic aldolases can be differentiated from naturally occurring aldolases.
    Type: Grant
    Filed: December 12, 2008
    Date of Patent: December 25, 2012
    Assignee: University of Washington
    Inventors: David Baker, Alexandre Zanghellini, Lin Jiang, Andrew Wollacott, Daniela Grabs-Röthlisberger, Eric Althoff
  • Publication number: 20120310443
    Abstract: An orientation-based wireless sensor includes a transmitter unit having a body housing a microprocessor, a transmitter, and an accelerometer for detecting the orientation of the transmitter unit relative to one-, two- or three-axis of the direction of the pull of earth's gravity. The transmitter body is mounted on a feature of a vehicle that it is desirable to monitor.
    Type: Application
    Filed: August 14, 2012
    Publication date: December 6, 2012
    Applicant: LAT-LON, LLC.
    Inventor: David A. Baker
  • Publication number: 20120283295
    Abstract: The invention provides an indazole derivative of formula (1), or a pharmaceutically acceptable salt or N-oxide thereof, wherein R1, R2, R3 and R4 are as defined herein. The indazole derivatives are capable of blockading voltage dependent sodium channels and they are useful in the treatment or prevention of normal tension glaucoma, multiple sclerosis, a motorneurone disease, stroke, spinal cord injury, Alzheimer's disease, Parkinson's disease or pain.
    Type: Application
    Filed: September 30, 2010
    Publication date: November 8, 2012
    Applicant: University College London
    Inventors: Cristina Garcia Posada, David Selwood, John Garthwaite, David Baker, Lisa Clutterbuck