Patents Assigned to Maxygen, Inc.
  • Methods, systems, and software for identifying functional biomolecules
    Publication number: 20080133143
    Abstract: The present invention generally relates to methods of rapidly and efficiently searching biologically-related data space. More specifically, the invention includes methods of identifying bio-molecules with desired properties, or which are most suitable for acquiring such properties, from complex bio-molecule libraries or sets of such libraries. The invention also provides methods of modeling sequence-activity relationships. As many of the methods are computer-implemented, the invention additionally provides digital systems and software for performing these methods.
    Type: Application
    Filed: October 30, 2007
    Publication date: June 5, 2008
    Applicant: MAXYGEN, INC
    Inventors: Claes Gustafsson, Sridhar Govindarajan, Robin A. Emig, Richard John Fox, Ajoy K. Roy, Jeremy S. Minshull, S. Christopher Davis, Anthony R. Cox, Phillip A. Patten, Linda A. Castle, Daniel L. Siehl, Rebecca Lynne Gorton, Teddy Chen
  • Methods for making character strings, polynucleotides and polypeptides having desired characteristics
    Publication number: 20080050782
    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: October 18, 2007
    Publication date: February 28, 2008
    Applicant: Maxygen, Inc.
    Inventors: Sergey Selifonov, Willem Stemmer, Claes Gustafsson, Matthew Tobin, Stephen Cardayre, Phillip Patten, Jeremy Minshull, Lorraine Giver
  • Methods of populating data structures for use in evolutionary simulations
    Publication number: 20080040045
    Abstract: In particular, this invention provides novel methods of populating data structures for use in evolutionary modeling. In particular, this invention provides methods of populating a data structure with a plurality of character strings. The methods involve encoding two or more a biological molecules into character strings to provide a collection of two or more different initial character strings; selecting at least two substrings from the pool of character strings; concatenating the substrings to form one or more product strings about the same length as one or more of the initial character strings; adding the product strings to a collection of strings; and optionally repeating this process using one or more of the product strings as an initial string in the collection of initial character strings.
    Type: Application
    Filed: October 9, 2007
    Publication date: February 14, 2008
    Applicant: Maxygen, Inc.
    Inventors: Sergey Selifonov, Willem Stemmer
  • Targeting of genetic vaccine vectors
    Publication number: 20080019988
    Abstract: This invention provides methods of obtaining reagents for increasing the specificity of genetic vaccines for a desired target cell or tissue type. The invention also provides delivery vehicles for use to improve genetic vaccine specificity for a target cell or tissue type.
    Type: Application
    Filed: March 1, 2007
    Publication date: January 24, 2008
    Applicant: Maxygen, Inc.
    Inventors: Juha Punnonen, Willem Stemmer, Russell Howard, Phillip Patten
  • Integrated Systems and Methods for Diversity Generation and Screening
    Publication number: 20080015116
    Abstract: Integrated systems and methods for diversity generation and screening are provided. The systems use common fluid and array handling components to provide nucleic acid diversification, transcription, translation, product screening and subsequent diversification reactions.
    Type: Application
    Filed: February 21, 2007
    Publication date: January 17, 2008
    Applicant: MAXYGEN, INC.
    Inventors: Steven Bass, S. Davis, Phillip Patten, Matthew Tobin, Jeremy Minshull, Mark Welch, Claus Gustafsson, Brian Carr, Stephane Jenne, Sun Raillard, Andreas Crameri, Willem Stemmer, Robin Emig, Pascal Longschamp, Stanley Goldman, Lorraine Giver, Joseph Affholter
  • Interferon-alpha polypeptides and conjugates
    Patent number: 7318918
    Abstract: The present invention provides interferon-alpha polypeptides and conjugates, and nucleic acids encoding the polypeptides. The invention also includes compositions comprising these polypeptides, conjugates, and nucleic acids; cells containing or expressing the polypeptides, conjugates, and nucleic acids; methods of making the polypeptides, conjugates, and nucleic acids; and methods of using the polypeptides, conjugates, and nucleic acids.
    Type: Grant
    Filed: May 18, 2005
    Date of Patent: January 15, 2008
    Assignees: Maxygen, Inc., Roche Palo Alto LLC
    Inventors: Phillip A. Patten, Sridhar Viswanathan, Torben Lauesgaard Nissen, Anne Vogt, Harald Kropshofer, Ralf Schumacher, Stephan Fischer, Stefan Seeber, Andreas Schaubmar, Hans Koll
  • Interferon-alpha polypeptides and conjugates
    Patent number: 7314613
    Abstract: The present invention provides interferon-alpha polypeptides and conjugates, and nucleic acids encoding the polypeptides. The invention also includes compositions comprising these polypeptides, conjugates, and nucleic acids; cells containing or expressing the polypeptides, conjugates, and nucleic acids; methods of making the polypeptides, conjugates, and nucleic acids; and methods of using the polypeptides, conjugates, and nucleic acids.
    Type: Grant
    Filed: May 19, 2004
    Date of Patent: January 1, 2008
    Assignee: Maxygen, Inc.
    Inventors: Phillip A. Patten, Sridhar Govindarajan, Sridhar Viswanathan, Torben Lauesgaard Nissen
  • SUBTILISIN VARIANTS
    Publication number: 20070270574
    Abstract: New subtilisin homologues (both nucleic acids and proteins) are provided. Compositions which include these new proteins, recombinant cells, shuffling methods involving the new homologues, antibodies to the new homologues, and methods of using the homologues are also provided.
    Type: Application
    Filed: April 17, 2007
    Publication date: November 22, 2007
    Applicants: Novozymes A/S, Maxygen Inc.
    Inventors: Jon Ness, Mark Welch, Lorraine Giver, Joel Cherry, Torben Borchert, Jeremy Minshull
  • Methods for generating polynucleotides having desired characteristics by iterative selection and recombination
    Patent number: 7288375
    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: July 18, 2003
    Date of Patent: October 30, 2007
    Assignee: Maxygen, Inc.
    Inventors: Willem P. C. Stemmer, Andreas Crameri
  • Methods, systems, and software for identifying functional biomolecules
    Publication number: 20070239364
    Abstract: The present invention generally relates to methods of rapidly and efficiently searching biologically-related data space. More specifically, the invention includes methods of identifying bio-molecules with desired properties, or which are most suitable for acquiring such properties, from complex bio-molecule libraries or sets of such libraries. The invention also provides methods of modeling sequence-activity relationships. As many of the methods are computer-implemented, the invention additionally provides digital systems and software for performing these methods.
    Type: Application
    Filed: February 12, 2007
    Publication date: October 11, 2007
    Applicant: MAXYGEN, INC.
    Inventor: Richard Fox
  • INTERFERON-ALPHA POLYPEPTIDES AND CONJUGATES
    Publication number: 20070225205
    Abstract: The present invention provides interferon-alpha polypeptides and conjugates, and nucleic acids encoding the polypeptides. The invention also includes compositions comprising these polypeptides, conjugates, and nucleic acids; cells containing or expressing the polypeptides, conjugates, and nucleic acids; methods of making the polypeptides, conjugates, and nucleic acids; and methods of using the polypeptides, conjugates, and nucleic acids.
    Type: Application
    Filed: September 14, 2006
    Publication date: September 27, 2007
    Applicants: MAXYGEN, INC., ROCHE PALO ALTO LLC
    Inventors: Phillip Patten, Sridhar Viswanathan, Torben Nissen, Anne Vogt, Harald Kropshofer, Ralf Schumacher, Stephan Fischer, Stefan Seeber, Adelbert Grossmann, Friederike Hesse, Andreas Schaubmar, Roberto Falkenstein, Hans Koll, Markus Dembowski
  • INTERFERON-ALPHA POLYPEPTIDES AND CONJUGATES
    Publication number: 20070225204
    Abstract: The present invention provides interferon-alpha polypeptides and conjugates, and nucleic acids encoding the polypeptides. The invention also includes compositions comprising these polypeptides, conjugates, and nucleic acids; cells containing or expressing the polypeptides, conjugates, and nucleic acids; methods of making the polypeptides, conjugates, and nucleic acids; and methods of using the polypeptides, conjugates, and nucleic acids.
    Type: Application
    Filed: September 14, 2006
    Publication date: September 27, 2007
    Applicants: MAXYGEN, INC., ROCHE PALO ALTO LLC
    Inventors: Phillip Patten, Sridhar Viswanathan, Torben Nissen, Anne Vogt, Harald Kropshofer, Ralf Schumacher, Stephan Fischer, Stefan Seeber, Adelbert Grossmann, Friederike Hesse, Andreas Schaubmar, Roberto Falkenstein, Hans Koll, Markus Dembowski
  • Interferon-? variants and conjugates
    Patent number: 7238344
    Abstract: The present invention provides new interferon ? conjugates, methods of preparing such conjugates and the use of such conjugates in therapy, in particular for the treatment of multiple sclerosis.
    Type: Grant
    Filed: December 19, 2002
    Date of Patent: July 3, 2007
    Assignee: Maxygen, Inc.
    Inventors: Anders Hjelholt Pedersen, Kim Vilbour Andersen, Claus Bornaes, Poul Baad Rasmussen
  • Subtilisin variants
    Patent number: 7220566
    Abstract: New subtilisin homologues (both nucleic acids and proteins) are provided. Compositions which include these new proteins, recombinant cells, shuffling methods involving the new homologues, antibodies to the new homologues, and methods of using the homologues are also provided.
    Type: Grant
    Filed: December 15, 2003
    Date of Patent: May 22, 2007
    Assignees: Novozymes A/s, Maxygen, Inc.
    Inventors: Jon E. Ness, Mark Welch, Lorraine J. Giver, Joel R. Cherry, Torben V. Borchert, Jeremy Minshull
  • Methods for generating polynucleotides having desired characteristics by iterative selection and recombination
    Publication number: 20070092887
    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: Application
    Filed: April 14, 2006
    Publication date: April 26, 2007
    Applicant: Maxygen, Inc.
    Inventors: Willem Stemmer, Andreas Crameri
  • OLIGONUCLEOTIDE MEDIATED NUCLEIC ACID RECOMBINATION
    Publication number: 20070065838
    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: Application
    Filed: March 23, 2006
    Publication date: March 22, 2007
    Applicant: Maxygen, Inc.
    Inventors: Andreas Crameri, Willem Stemmer, Jeremy Minshull, Steven Bass, Mark Welch, John Ness, Claes Gustafsson, Phillip Patten
  • Oligonucleotide mediated nucleic acid recombination
    Publication number: 20070054313
    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: Application
    Filed: November 13, 2006
    Publication date: March 8, 2007
    Applicant: Maxygen, Inc.
    Inventors: Andreas Crameri, Willem Stemmer, Jeremy Minshull, Steven Bass, Mark Welch, Jon Ness, Claes Gustafsson, Phillip Patten
  • Variant B7 co-stimulatory molecules
    Patent number: 7183376
    Abstract: The invention provides polynucleotides and polypeptides encoded therefrom having advantageous properties, including an ability of the polypeptides to preferentially bind a CD28 or CTLA-4 receptor at a level greater or less than the ability of human B7-1 to bind CD28 or CTLA-4, or to induce or inhibit altered level of T cell proliferation response greater compared to that generated by human B7-1. The polypeptides and polynucleotides of the invention are useful in therapeutic and prophylactic treatment methods, gene therapy applications, and vaccines.
    Type: Grant
    Filed: December 20, 2001
    Date of Patent: February 27, 2007
    Assignee: Maxygen, Inc.
    Inventors: Juha Punnonen, Alexandra Lazetic, Steven R. Leong, Chia-Chun Chang
  • INTERFERON-ALPHA POLYPEPTIDES AND CONJUGATES
    Publication number: 20070025966
    Abstract: The present invention provides interferon-alpha polypeptides and conjugates, and nucleic acids encoding the polypeptides. The invention also includes compositions comprising these polypeptides, conjugates, and nucleic acids; cells containing or expressing the polypeptides, conjugates, and nucleic acids; methods of making the polypeptides, conjugates, and nucleic acids; and methods of using the polypeptides, conjugates, and nucleic acids.
    Type: Application
    Filed: September 13, 2006
    Publication date: February 1, 2007
    Applicants: MAXYGEN, INC., ROCHE PALO ALTO LLC
    Inventors: Phillip Patten, Sridhar Viswanathan, Torben Nissen, Anne Vogt, Harald Kropshofer, Ralf Schumacher, Stephan Fischer, Stefan Seeber, Adelbert Grossmann, Friederike Hesse, Andreas Schaubmar, Roberto Falkenstein, Hans Koll, Markus Dembowski
  • INTERFERON-ALPHA POLYPEPTIDES AND CONJUGATES
    Publication number: 20070020235
    Abstract: The present invention provides interferon-alpha polypeptides and conjugates, and nucleic acids encoding the polypeptides. The invention also includes compositions comprising these polypeptides, conjugates, and nucleic acids; cells containing or expressing the polypeptides, conjugates, and nucleic acids; methods of making the polypeptides, conjugates, and nucleic acids; and methods of using the polypeptides, conjugates, and nucleic acids.
    Type: Application
    Filed: September 13, 2006
    Publication date: January 25, 2007
    Applicants: MAXYGEN, INC., ROCHE PALO ALTO LLC
    Inventors: Phillip Patten, Sridhar Viswanathan, Torben Nissen, Anne Vogt, Harald Kropshofer, Ralf Schumacher, Stephan Fischer, Stefan Seeber, Adelbert Grossmann, Friederike Hesse, Andreas Schaubmar, Roberto Falkenstein, Hans Koll, Markus Dembowski