Patents by Inventor Brian Bayne

Brian Bayne 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).

  • Publication number: 20080064610
    Abstract: Aspects of the invention relate to the design and synthesis of nucleic acid libraries. Certain embodiments relate to the design and synthesis of nucleic acid libraries that express polypeptides. In some embodiments, the invention provides methods for analyzing polypeptide sequences and identifying those that may confer undesirable properties in vivo (e.g., poor solubility, high immunogenicity, low stability, etc.). In some embodiments, the invention provides methods for synthesizing a library of nucleic acids having predetermined sequences (e.g., a library of nucleic acids that encode polypeptides having related sequences with predetermined sequence variations).
    Type: Application
    Filed: May 21, 2007
    Publication date: March 13, 2008
    Applicant: Codon Devices
    Inventors: Dasa Lipovsek, Brian Baynes
  • Publication number: 20070269870
    Abstract: Disclosed are methods of manufacturing synthetic DNAs, that is, DNAs made at least in significant part by chemical synthesis of nucleic acid polymers. Also provided are methods for assembling plural DNAs in the same pool by multiplexed assembly of synthetic oligonucleotides. In exemplary embodiments, the methods involve pre-amplification of one or more oligonucleotides using “universal” primers, reduction of the error rate in oligonucleotide and/or nucleic acid products, and sequence optimization and oligonucleotides design. Also provided are low-purity arrays of nucleic acids and methods for assembling nucleic acids using oligonucleotides obtained from low-purity arrays.
    Type: Application
    Filed: October 18, 2005
    Publication date: November 22, 2007
    Inventors: George Church, Noubar Afeyan, Joseph Jacobson, Brian Baynes, Kenneth Nesmith, Brad Chapman, Bettina Strack-Logue
  • Publication number: 20070231805
    Abstract: Certain aspects of the present invention provide methods for increasing the fidelity of multiplex nucleic acid assembly reactions using one or more mismatch binding proteins. Aspects of the invention also provide kits, compositions, devices, and systems for enriching nucleic acid samples for nucleic acids containing correct sequences using clamped forms of one or more mismatch binding proteins.
    Type: Application
    Filed: March 31, 2006
    Publication date: October 4, 2007
    Inventors: Brian Baynes, William Blake
  • Publication number: 20070184487
    Abstract: Provided are methods for de novo design of proteins that are non-immunogenic when administered for therapeutic purposes. The methods involve protein design based on combinations of peptide fragments naturally encountered by the immune system.
    Type: Application
    Filed: July 12, 2006
    Publication date: August 9, 2007
    Inventor: Brian Baynes
  • Publication number: 20070122817
    Abstract: Disclosed are methods of manufacturing synthetic DNAs, that is, DNAs made at least in significant part by chemical synthesis of polynucleotide polymers. Also provided are methods for assembling plural DNAs in the same pool by multiplexed assembly of synthetic oligonucleotides. In exemplary embodiments, the methods involve pre-amplification of one or more oligonucleotides using “universal” primers, reduction of the error rate in oligonucleotide and/or polynucleotide products, and sequence optimization and oligonucleotides design.
    Type: Application
    Filed: February 28, 2005
    Publication date: May 31, 2007
    Inventors: George Church, Joseph Jacobson, Brian Baynes
  • Publication number: 20070048793
    Abstract: Provided herein are compositions and methods for metabolic pathway engineering. The methods involve combining two or more cells expressing potential pathway proteins extracellularly in the presence of reactants. Also provided are libraries of cells expressing a plurality of pathway components and/or a plurality of variants of a given pathway component extracellularly.
    Type: Application
    Filed: July 12, 2006
    Publication date: March 1, 2007
    Inventor: Brian Baynes
  • Publication number: 20070004041
    Abstract: The present invention provides recombination based methods for assembling nucleic acids. In certain aspects the present invention provides hierarchical assembly methods for producing genome sized polynucleotide constructs. The methods may be used for assembling large polynucleotide constructs, for synthesizing synthetic genomes, or for introducing a plurality of nucleotide changes throughout the genome of an organism. In another aspect, the invention provides cells having increased genomic stability. For example, cells comprising alterations in at least a substantial portion of the transposons in the genome are provided.
    Type: Application
    Filed: January 12, 2006
    Publication date: January 4, 2007
    Applicant: Codon Devices, Inc.
    Inventors: George Church, Brian Baynes, Edmund Pitcher
  • Publication number: 20060194214
    Abstract: Disclosed are methods of manufacturing synthetic DNAs, that is, DNAs made at least in significant part by chemical synthesis of polynucleotide polymers. Also provided are methods for assembling plural DNAs in the same pool by multiplexed assembly of synthetic oligonucleotides. In exemplary embodiments, the methods involve pre-amplification of one or more oligonucleotides using “universal” primers, reduction of the error rate in oligonucleotide and/or polynucleotide products, and sequence optimization and oligonucleotides design.
    Type: Application
    Filed: February 28, 2005
    Publication date: August 31, 2006
    Inventors: George Church, Joseph Jacobson, Brian Baynes
  • Publication number: 20060160138
    Abstract: In certain aspects the present invention provides methods and compositions related to rational protein design.
    Type: Application
    Filed: January 13, 2006
    Publication date: July 20, 2006
    Inventors: George Church, Brian Baynes
  • Publication number: 20060115429
    Abstract: Disclosed are methods for the practice of systems pharmacology, systems toxicology, and systems pathology using patterns, such as images, reflective of the biological state of subjects such as humans or experimental mammals. The patterns are generated from data obtained from one or more samples from one or more subjects by applying certain data treatment techniques, and are reflective of the biochemistry of the subjects. The patterns are used in drug selection and discovery, assessment of toxicity and drug efficacy, segmentation of populations, discovery of disease subtypes, as surrogate end points, in the assessment of therapeutic options, and for diagnosis and prognosis of disease.
    Type: Application
    Filed: November 30, 2004
    Publication date: June 1, 2006
    Inventors: Noubar Afeyan, Aram Adourian, Amir Handzel, Brian Baynes
  • Publication number: 20050074865
    Abstract: Disclosed is a family of novel protein constructs, useful as drugs and for other purposes, termed “adzymes,” comprising an address moiety and a catalytic domain. In some types of disclosed adzymes, the address binds with a binding site on or in functional proximity to a targeted biomolecule, e.g., an extracellular targeted biomolecule, and is disposed adjacent the catalytic domain so that its affinity serves to confer a new specificity to the catalytic domain by increasing the effective local concentration of the target in the vicinity of the catalytic domain. The present invention also provides pharmaceutical compositions comprising these adzymes, methods of making adzymes, DNA's encoding adzymes or parts thereof, and methods of using adzymes, such as for treating human subjects suffering from a disease, such as a disease associated with a soluble or membrane bound molecule, e.g., an allergic or inflammatory disease.
    Type: Application
    Filed: March 2, 2004
    Publication date: April 7, 2005
    Applicant: COMPOUND THERAPEUTICS, INC.
    Inventors: Noubar Afeyan, Frank Lee, Gordon Wong, Ruchira Das Gupta, Brian Baynes
  • Publication number: 20040259155
    Abstract: The present invention provides, among other things, methods for engineering a spatially conserved motifs into a recipient polypeptide or polypeptide complex that does not naturally contain such a motif.
    Type: Application
    Filed: September 30, 2003
    Publication date: December 23, 2004
    Applicant: Compound Therapeutics, Inc.
    Inventors: John Chan, Shengsheng Zhang, Brian Baynes
  • Publication number: 20040081648
    Abstract: Disclosed is a family of novel protein constructs, useful as drugs and for other purposes, termed “adzymes,” comprising an address moiety and a catalytic domain. In some types of disclosed adzymes, the address binds with a binding site on or in functional proximity to a targeted biomolecule, e.g., an extracellular targeted biomolecule, and is disposed adjacent the catalytic domain so that its affinity serves to confer a new specificity to the catalytic domain by increasing the effective local concentration of the target in the vicinity of the catalytic domain. The present invention also provides pharmaceutical compositions comprising these adzymes, methods of making adzymes, DNA's encoding adzymes or parts thereof, and methods of using adzymes, such as for treating human subjects suffering from a disease, such as a disease associated with a soluble or membrane bound molecule, e.g., an allergic or inflammatory disease.
    Type: Application
    Filed: August 27, 2003
    Publication date: April 29, 2004
    Inventors: Noubar B. Afeyan, Frank D. Lee, Gordon G. Wong, Ruchira Das Gupta, Brian Baynes
  • Publication number: 20040081647
    Abstract: Disclosed is a family of novel protein constructs, useful as drugs and for other purposes, termed “adzymes,” comprising an address moiety and a catalytic domain. In some types of disclosed adzymes, the address binds with a binding site on or in functional proximity to a targeted biomolecule, e.g., an extracellular targeted biomolecule, and is disposed adjacent the catalytic domain so that its affinity serves to confer a new specificity to the catalytic domain by increasing the effective local concentration of the target in the vicinity of the catalytic domain. The present invention also provides pharmaceutical compositions comprising these adzymes, methods of making adzymes, DNA's encoding adzymes or parts thereof, and methods of using adzymes, such as for treating human subjects suffering from a disease, such as a disease associated with a soluble or membrane bound molecule, e.g., an allergic or inflammatory disease.
    Type: Application
    Filed: August 27, 2003
    Publication date: April 29, 2004
    Inventors: Noubar B. Afeyan, Frank D. Lee, Gordon G. Wong, Ruchira DasGupta, Brian Baynes
  • Patent number: 6612584
    Abstract: A flange and seal assembly is provided with an annular sealing ring and a mounting component. The annular sealing ring is retained as a part of the mounting component. The mounting component has a mounting end with a mounting flange extending outwardly from the mounting end, and an annular seal receiving recess formed in an axial end surface of the mounting end, and a retaining element extending from the mounting end. A portion of the sealing ring is axially retained between the retaining element and the axial end surface of the mounting end.
    Type: Grant
    Filed: April 19, 2002
    Date of Patent: September 2, 2003
    Assignee: PerkinElmer, Inc.
    Inventors: Carmella Ferouz, Brian Bayne, Joseph Kim, Stephen B. Rowland
  • Patent number: 4486999
    Abstract: An open ended tubular body member has a continuous defining side wall formed of rigid sheet material of high tensile strength. This body member is arranged to be driven into the end of a wood pole longitudinally with the grain. The side wall is contoured to have a plurality of adjoining wall portions with adjacent ones of the wall portions being disposed angularly relative to each other and each arranged to intersect the growth rings of the wood in a diagonal direction. The device resists radial checking of the pole due to aging of the pole or moisture changes and also reinforces the pole whereby mounting bolts for brackets or cross arms are arranged to have a positive securement to a pole.
    Type: Grant
    Filed: October 12, 1983
    Date of Patent: December 11, 1984
    Inventor: Brian Bayne
  • Patent number: D370267
    Type: Grant
    Filed: October 28, 1994
    Date of Patent: May 28, 1996
    Inventor: Brian Bayne