Patents by Inventor Willem P.C. Stemmer

Willem P.C. Stemmer 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).

  • Shuffling polynucleotides by incomplete extension
    Patent number: 6506603
    Abstract: A method for DNA reassembly after random fragmentation, and its application to mutagenesis of nucleic acid sequences by in vitro or in vivo recombination is described. In particular, a method for the production of nucleic acid fragments or polynucleotides encoding mutant proteins is described. The present invention also relates to a method of repeated cycles of mutagenesis, shuffling and selection which allow for the directed molecular evolution in vitro or in vivo of proteins.
    Type: Grant
    Filed: November 18, 2000
    Date of Patent: January 14, 2003
    Assignee: Maxygen, Inc.
    Inventor: Willem P. C. Stemmer
  • Optimization of pest resistance genes using DNA shuffling
    Patent number: 6500617
    Abstract: This invention provides methods of obtaining pest resistance genes that are improved over naturally occurring genes for use in conferring upon plants resistance to pests. The methods involve the use of DNA shuffling of pest resistance genes to produce libraries of recombinant pest resistance genes, which are then screened to identify those that exhibit the improved property or properties of interest.
    Type: Grant
    Filed: April 22, 1999
    Date of Patent: December 31, 2002
    Assignee: Maxygen, Inc.
    Inventors: Willem P. C. Stemmer, Linda A. Castle, Takashi Yamamoto
  • ANTIGEN LIBRARY IMMUNIZATION
    Publication number: 20020198162
    Abstract: This invention is directed to antigen library immunization, which provides methods for obtaining antigens having improved properties for therapeutic and other uses. The methods are useful for obtaining improved antigens that can induce an immune response against pathogens, cancer, and other conditions, as well as antigens that are effective in modulating allergy, inflammatory and autoimmune diseases.
    Type: Application
    Filed: February 10, 1999
    Publication date: December 26, 2002
    Inventors: JUHA PUNNONEN, STEVEN H. BASS, ROBERT GERALD WHALEN, RUSSELL HOWARD, WILLEM P. C. STEMMER
  • Methods for making character strings, polynucleotides and polypeptides having desired characteristics
    Publication number: 20020183934
    Abstract: “In silico” nucleic acid recombination methods, related integrated systems utilizing genetic operators and libraries made by in silico shuffling methods are provided.
    Type: Application
    Filed: January 18, 2000
    Publication date: December 5, 2002
    Inventors: Sergey A. Selifonov, Willem P.C. Stemmer, Claes Gustafsson, Matthew Tobin, Stephen del Cardayre, Phillip A. Patten, Jeremy Minshull
  • End-complementary polymerase reaction
    Patent number: 6489146
    Abstract: The present invention is directed to a process for amplifying and detecting any target nucleic acid sequence contained in a nucleic acid or mixture thereof and for assembling large polynucleotides from component polynucleotides, each involving generating concatemers formed by PCR amplification of overlapping fragments.
    Type: Grant
    Filed: February 5, 1999
    Date of Patent: December 3, 2002
    Assignees: Glaxo Group Limited, Affymatrix, Inc.
    Inventors: Willem P.C. Stemmer, Robert J. Lipshutz
  • Evolving susceptibility of cellular receptors to viral infection by recursive recombination
    Patent number: 6482647
    Abstract: The invention provides a number of strategies for transferring and/or evolving gene(s) associated with cellular DNA uptake so that they confer or enhance DNA-uptake capacity of a recipient cell. Evolution is achieved by recursive cycles of recombination and screening/selection. One such strategy entails evolving genes that confer competence in one species to confer either greater competence in that species, or comparable or greater competence in a second species. Another strategy entails evolving genes for use as components of cloning vector to confer enhanced uptake of the vector. Other strategies entail evolving viral receptors, viruses, and genes that mediate conjugal transfer.
    Type: Grant
    Filed: November 28, 2000
    Date of Patent: November 19, 2002
    Assignee: Maxygen, Inc.
    Inventor: Willem P. C. Stemmer
  • Modified ADP-glucose pyrophosphorylase for improvement and optimization of plant phenotypes
    Patent number: 6483011
    Abstract: The invention provides methods and compositions relating to sequence-shuffled variants of ADP-glucose pyrophosphorylase.
    Type: Grant
    Filed: November 22, 2000
    Date of Patent: November 19, 2002
    Assignee: Maxygen, Inc.
    Inventors: Willem P. C. Stemmer, Venkiteswaran Subramanian
  • Oligonucleotide mediated nucleic acid recombination
    Patent number: 6479652
    Abstract: Methods of recombining nucleic acids, including homologous nucleic acids, are provided. Families of gene shuffling oligonucleotides and their use in recombination procedures, as well as polymerase and ligase mediated recombination methods are also provided.
    Type: Grant
    Filed: July 27, 2000
    Date of Patent: November 12, 2002
    Assignee: Maxygen, Inc.
    Inventors: Andreas Crameri, Willem P. C. Stemmer, Jeremy Minshull, Steven H. Bass, Mark Welch, Jon E. Ness, Claes Gustafsson, Phillip A. Patten
  • METHODS FOR OBTAINING A POLYNECLEOTIDE ENCODING A POLYPEPTIDE HAVING A RUBISCO ACTIVITY
    Publication number: 20020151017
    Abstract: The invention relates to methods and compositions for generating, modifying, adapting, and optimizing polynucleotide sequences that encode proteins having Rubisco biosynthetic enzyme activities which are useful for introduction into plant species, agronomically-important microorganisms, and other hosts, and related aspects.
    Type: Application
    Filed: November 9, 1999
    Publication date: October 17, 2002
    Inventors: WILLEM P. C. STEMMER, VENKITSWARAN SUBRAMANIAN, GENHAI ZHU, LU LIU, SERGEY A. SELIFONOV
  • Stress resistant retroviruses
    Publication number: 20020137889
    Abstract: Stress and/or shear resistant retrovirus envelope protein polypeptides and nucleic acids encoding such polypeptides, as well as fragments of such nucleic acids and polypeptides and compositions thereof, are provided. Retroviruses incorporating such polypeptides and methods of using stress resistant retrovirus envelope protein polypeptides and corresponding nucleic acids are also described.
    Type: Application
    Filed: September 17, 2001
    Publication date: September 26, 2002
    Inventors: Nay Wei Soong, Willem P.C. Stemmer, Sharon K. Powell, Edward Otto
  • Methods and compositions for polypeptide engineering
    Patent number: 6455253
    Abstract: Methods are provided for the evolution of proteins of industrial and pharmaceutical interest, including methods for effecting recombination and selection. Compositions produced by these methods are also disclosed.
    Type: Grant
    Filed: April 27, 2000
    Date of Patent: September 24, 2002
    Assignee: Maxygen, Inc.
    Inventors: Phillip A. Patten, Willem P. C. Stemmer
  • Methods for generating polynucleotides having desired characteristics by iterative selection and recombination
    Patent number: 6444468
    Abstract: A method for DNA reassembly after random fragmentation, and its application to mutagenesis of nucleic acid sequences by in vitro or in vivo recombination is described. In particular, a method for the production of nucleic acid fragments or polynucleotides encoding mutant proteins is described. The present invention also relates to a method of repeated cycles of mutagenesis, shuffling and selection which allow for the directed molecular evolution in vitro or in vivo of proteins.
    Type: Grant
    Filed: November 28, 2000
    Date of Patent: September 3, 2002
    Assignee: Maxygen, Inc.
    Inventors: Willem P. C. Stemmer, Andreas Crameri
  • Use of codon-varied oligonucleotide synthesis for synthetic shuffling
    Patent number: 6436675
    Abstract: Methods of providing shuffling libraries that include codon-varied oligonucleotide sequences are described. Codon-varied oligonucleotides are synthesized using trinucleotide or mononucleotide phosphoramidite sequences, and are derived from homologous or non-homologous nucleic acid sequences, or combinations of such sequences. Various methods of recombining codon-varied oligonucleotide sequences to expedite artificial evolution are also described. The present invention additionally relates to various integrated systems that are optionally used to automate these recombination methods.
    Type: Grant
    Filed: September 28, 1999
    Date of Patent: August 20, 2002
    Assignee: Maxygen, Inc.
    Inventors: Mark Welch, Jon Ness, Claes Gustafsson, Willem P. C. Stemmer, Jeremy Minshull
  • Oligonucleotide mediated nucleic acid recombination
    Patent number: 6426224
    Abstract: Methods of recombining nucleic acids, including homologous nucleic acids, are provided. Families of gene shuffling oligonucleotides and their use in recombination procedures, as well as polymerase and ligase mediated recombination methods are also provided.
    Type: Grant
    Filed: July 27, 2000
    Date of Patent: July 30, 2002
    Assignee: MaxyGen, Inc.
    Inventors: Andreas Crameri, Willem P. C. Stemmer, Jeremy Minshull, Steven H. Bass, Mark Welch, Jon E. Ness, Claes Gustafsson, Phillip A. Patten
  • Oligonucleotide mediated nucleic acid recombination
    Patent number: 6423542
    Abstract: Methods of recombining nucleic acids, including homologous nucleic acids, are provided. Families of gene shuffling oligonucleotides and their use in recombination procedures, as well as polymerase and ligase mediated recombination methods are also provided.
    Type: Grant
    Filed: July 27, 2000
    Date of Patent: July 23, 2002
    Assignee: Maxygen, Inc.
    Inventors: Andreas Crameri, Willem P. C. Stemmer, Jeremy Minshull, Steven H. Bass, Mark Welch, Jon E. Ness, Claes Gustafsson, Phillip A. Patten
  • Methods for generating polynucleotides having desired characteristics by iterative selection and recombination
    Patent number: 6420175
    Abstract: A method for DNA reassembly after random fragmentation, and its application to mutagenesis of nucleic acid sequences by in vitro or in vivo recombination is described. In particular, a method for the production of nucleic acid fragments or polynucleotides encoding mutant proteins is described. The present invention also relates to a method of repeated cycles of mutagenesis, shuffling and selection which allow for the directed molecular evolution in vitro or in vivo of proteins.
    Type: Grant
    Filed: January 15, 1999
    Date of Patent: July 16, 2002
    Assignee: Maxygen, Inc.
    Inventor: Willem P.C. Stemmer
  • Methods for generating polynucleotides having desired characteristics by iterative selection and recombination
    Patent number: 6413774
    Abstract: A method for DNA reassembly after random fragmentation, and its application to mutagenesis of nucleic acid sequences by in vitro or in vivo recombination is described. In particular, a method for the production of nucleic acid fragments or polynucleotides encoding mutant proteins is described. The present invention also relates to a method of repeated cycles of mutagenesis, shuffling and selection which allow for the directed molecular evolution in vitro or in vivo of proteins.
    Type: Grant
    Filed: January 29, 1999
    Date of Patent: July 2, 2002
    Assignee: Maxygen, Inc.
    Inventors: Willem P. C. Stemmer, Andreas M. Cramieri
  • Recombination of insertion modified nucleic acids
    Patent number: 6413745
    Abstract: Methods of modulating, tuning and improving hybridization properties and recombination properties of molecules for use in nucleic acid shuffling procedures, relates recombination mixtures and methods of modulating, tuning, improving and evolving splicing of RNAs and proteins are provided.
    Type: Grant
    Filed: November 27, 2000
    Date of Patent: July 2, 2002
    Assignee: Maxygen, Inc
    Inventors: Phillip A. Patten, Volker Heinrichs, Willem P. C. Stemmer
  • Methods and compositions relating to the generation of partially transgenic organisms
    Publication number: 20020078476
    Abstract: The present invention provides methods of producing non-transgenic tissues or other agricultural products from a transgenic plant or other transgenic organism. Non-transgenic organism parts, for example, are derived from transgenic organisms by expression of sequence-specific DNA cleaving enzymes that excise recombinant polynucleotide constructs from the organism's genome by cleaving the constructs at specific recognition sequences that flank the constructs.
    Type: Application
    Filed: October 1, 2001
    Publication date: June 20, 2002
    Applicant: Maxygen, Inc.
    Inventor: Willem P.C. Stemmer
  • Methods and compositions for polypeptide engineering
    Patent number: 6406855
    Abstract: Methods are provided for the evolution of proteins of industrial and pharmaceutical interest, including methods for effecting recombination and selection. Compositions produced by these methods are also disclosed.
    Type: Grant
    Filed: November 22, 2000
    Date of Patent: June 18, 2002
    Assignee: Maxygen, Inc.
    Inventors: Phillip A. Patten, Willem P. C. Stemmer