Patents by Inventor Patrick Westfall

Patrick Westfall 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).

  • Simultaneous multiplex genome editing in yeast
    Patent number: 11746347
    Abstract: The present disclosure provides compositions of matter, methods and instruments for editing nucleic acids in live yeast cells.
    Type: Grant
    Filed: February 24, 2022
    Date of Patent: September 5, 2023
    Assignee: Inscripta, Inc.
    Inventors: Miles Gander, Tian Tian, Skylar Stefani, Patrick Westfall
  • NUCLEASE-MEDIATED PLASMID INTEGRATION
    Publication number: 20230136423
    Abstract: The present disclosure relates to methods and compositions for nuclease-mediated plasmid integration into the genome of a population of live cells, as well as automated multi-module instruments for performing these methods and using these compositions.
    Type: Application
    Filed: October 28, 2022
    Publication date: May 4, 2023
    Applicant: Inscripta, Inc.
    Inventors: Patrick WESTFALL, Catherine BARANOWSKI
  • NUCLEASE-MEDIATED MODULATION OF GENE EXPRESSION
    Publication number: 20230112702
    Abstract: The present disclosure relates to methods, compositions, and automated multi-module cell processing instruments for modulation of gene utilizing nuclease-mediated systems, and in particular, inactive (“dead”) nuclease-mediated CRISPR interference (CRISPRi) and CRISPR activation (CRISPRa) systems.
    Type: Application
    Filed: October 7, 2022
    Publication date: April 13, 2023
    Applicant: Inscripta, Inc.
    Inventors: Tian TIAN, Patrick WESTFALL, Eileen SPINDLER, Juhan KIM
  • SIMULTANEOUS MULTIPLEX GENOME EDITING IN YEAST
    Publication number: 20230012154
    Abstract: The present disclosure provides compositions of matter, methods and instruments for editing nucleic acids in live yeast cells.
    Type: Application
    Filed: February 24, 2022
    Publication date: January 12, 2023
    Inventors: Miles Gander, Tian Tian, Skylar Stefani, Patrick Westfall
  • CRISPR EDITING IN DIPLOID GENOMES
    Publication number: 20220389461
    Abstract: The present disclosure relates to automated multi-module instruments, compositions and methods for performing nucleic acid-guided nuclease editing; specifically, methods, instruments, systems, and nucleic acids synthetic cassettes that improve the efficiency of gene editing using CRISPR enzymes in diploid cells—either on both chromosomes or selectively in one chromosome—without incurring loss of heterozygosity (LOH) and its often deleterious effects.
    Type: Application
    Filed: May 24, 2022
    Publication date: December 8, 2022
    Inventors: Randy Lacey, Bryan Leland, Eileen Spindler, Patrick Westfall, Skylar Stefani, Catherine Baranowski
  • HTP GENOMIC ENGINEERING PLATFORM FOR IMPROVING FUNGAL STRAINS
    Publication number: 20220145288
    Abstract: A HTP genomic engineering platform for improving filamentous fungal cells that is computationally driven and integrates molecular biology, automation, and advanced machine learning protocols is provided. This integrative platform utilizes a suite of HTP molecular tool sets to create HTP genetic design libraries, which are derived from, inter alia, scientific insight and iterative pattern recognition. Methods for isolating clonal populations derived from individual fungal spores are also provided.
    Type: Application
    Filed: January 26, 2022
    Publication date: May 12, 2022
    Inventors: Vytas SunSpiral, Jennifer Fredlund, Hassan Abdulla, Paolo Boccazzi, Sean Poust, Sara da Luz Areosa Cleto, Brian Chaikind, Dylan Vaughan, Kenneth S. Bruno, Patrick Westfall, Edyta Szewczyk, Kyle Rothschild-Mancinelli, Arthur Muir Fong, III
  • Simultaneous multiplex genome editing in yeast
    Patent number: 11274296
    Abstract: The present disclosure provides compositions of matter, methods and instruments for editing nucleic acids in live yeast cells.
    Type: Grant
    Filed: September 1, 2021
    Date of Patent: March 15, 2022
    Assignee: Inscripta, Inc.
    Inventors: Miles Gander, Tian Tian, Skylar Stefani, Patrick Westfall
  • HTP genomic engineering platform for improving fungal strains
    Patent number: 11242524
    Abstract: A HTP genomic engineering platform for improving filamentous fungal cells that is computationally driven and integrates molecular biology, automation, and advanced machine learning protocols is provided. This integrative platform utilizes a suite of HTP molecular tool sets to create HTP genetic design libraries, which are derived from, inter alia, scientific insight and iterative pattern recognition. Methods for isolating clonal populations derived from individual fungal spores are also provided.
    Type: Grant
    Filed: March 19, 2021
    Date of Patent: February 8, 2022
    Assignee: Zymergen Inc.
    Inventors: Vytas SunSpiral, Jennifer Fredlund, Hassan Abdulla, Paolo Boccazzi, Sean Poust, Sara da Luz Areosa Cleto, Brian Chaikind, Dylan Vaughan, Kenneth S. Bruno, Patrick Westfall, Edyta Szewczyk, Kyle Rothschild-Mancinelli, Arthur Muir Fong, III
  • SIMULTANEOUS MULTIPLEX GENOME EDITING IN YEAST
    Publication number: 20210395727
    Abstract: The present disclosure provides compositions of matter, methods and instruments for editing nucleic acids in live yeast cells.
    Type: Application
    Filed: September 1, 2021
    Publication date: December 23, 2021
    Inventors: Miles Gander, Tian Tian, Skylar Stefani, Patrick Westfall
  • HTP genomic engineering platform for improving fungal strains
    Patent number: 11180753
    Abstract: HTP genomic engineering platform for improving filamentous fungal cells that is computationally driven and integrates molecular biology, automation, and advanced machine learning protocols. This integrative platform utilizes a suite of HTP molecular tool sets to create HTP genetic design libraries, which are derived from, inter alia, scientific insight and iterative pattern recognition. Methods can be carried out within optofluidic devices.
    Type: Grant
    Filed: December 20, 2019
    Date of Patent: November 23, 2021
    Assignee: Zymergen Inc.
    Inventors: Vytas SunSpiral, Jennifer Fredlund, Hassan Abdulla, Paolo Boccazzi, Sean Poust, Sara da Luz Areosa Cleto, Brian Chaikind, Dylan Vaughan, Kenneth S. Bruno, Patrick Westfall, Edyta Szewczyk, Kyle Rothschild-Mancinelli, Arthur Muir Fong, III
  • Simultaneous multiplex genome editing in yeast
    Patent number: 11136572
    Abstract: The present disclosure provides compositions of matter, methods and instruments for editing nucleic acids in live yeast cells.
    Type: Grant
    Filed: April 14, 2021
    Date of Patent: October 5, 2021
    Assignee: Inscripta, Inc.
    Inventors: Miles Gander, Tian Tian, Skylar Stefani, Patrick Westfall
  • HTP GENOMIC ENGINEERING PLATFORM FOR IMPROVING FUNGAL STRAINS
    Publication number: 20210284993
    Abstract: A HTP genomic engineering platform for improving filamentous fungal cells that is computationally driven and integrates molecular biology, automation, and advanced machine learning protocols is provided. This integrative platform utilizes a suite of HTP molecular tool sets to create HTP genetic design libraries, which are derived from, inter alia, scientific insight and iterative pattern recognition. Methods for isolating clonal populations derived from individual fungal spores are also provided.
    Type: Application
    Filed: March 19, 2021
    Publication date: September 16, 2021
    Inventors: Vytas SunSpiral, Jennifer Fredlund, Hassan Abdulla, Paolo Boccazzi, Sean Poust, Sara da Luz Areosa Cleto, Brian Chaikind, Dylan Vaughan, Kenneth S. Bruno, Patrick Westfall, Edyta Szewczyk, Kyle Rothschild-Mancinelli, Arthur Muir Fong, III
  • SIMULTANEOUS MULTIPLEX GENOME EDITING IN YEAST
    Publication number: 20210238586
    Abstract: The present disclosure provides compositions of matter, methods and instruments for editing nucleic acids in live yeast cells.
    Type: Application
    Filed: April 14, 2021
    Publication date: August 5, 2021
    Inventors: Miles Gander, Tian Tian, Skylar Stefani, Patrick Westfall
  • HTP genomic engineering platform for improving fungal strains
    Patent number: 10954511
    Abstract: A HTP genomic engineering platform for improving filamentous fungal cells that is computationally driven and integrates molecular biology, automation, and advanced machine learning protocols is provided. This integrative platform utilizes a suite of HTP molecular tool sets to create HTP genetic design libraries, which are derived from, inter alia, scientific insight and iterative pattern recognition. Methods for isolating clonal populations derived from individual fungal spores are also provided.
    Type: Grant
    Filed: October 11, 2019
    Date of Patent: March 23, 2021
    Assignee: Zymergen Inc.
    Inventors: Vytas SunSpiral, Jennifer Fredlund, Hassan Abdulla, Paolo Boccazzi, Sean Poust, Sara da Luz Areosa Cleto, Brian Chaikind, Dylan Vaughan, Kenneth S. Bruno, Patrick Westfall, Edyta Szewczyk, Kyle Rothschild-Mancinelli, Arthur Muir Fong, III
  • A HTP GENOMIC ENGINEERING PLATFORM FOR IMPROVING ESCHERICHIA COLI
    Publication number: 20200370058
    Abstract: The present disclosure provides a HTP genomic engineering platform for improving Escherichia coli. that is computationally driven and integrates molecular biology, automation, and advanced machine learning protocols. This integrative platform utilizes a suite of HTP molecular tool sets to create HTP genetic design libraries, which are derived from, inter alia, scientific insight and iterative pattern recognition.
    Type: Application
    Filed: June 6, 2018
    Publication date: November 26, 2020
    Inventors: Matthew Davis, Christy Wisnewski, Patrick Westfall, Zach Serber, Erik Jedediah Dean, Shawn Manchester, Katherine Gora, Erin Shellman, Aaron Kimball, Shawn Szyjka, Barbara Frewen, Thomas Treynor, Michael Flashman, Robert Haushalter, Stacy-Anne Morgan, Michael Blaisse, Prabha Ramakrishnan, Kyle Rothschild-Mancinelli, Youngnyun Kim
  • HTP GENOMIC ENGINEERING PLATFORM FOR IMPROVING FUNGAL STRAINS
    Publication number: 20200123535
    Abstract: The present disclosure provides a HTP genomic engineering platform for improving filamentous fungal cells that is computationally driven and integrates molecular biology, automation, and advanced machine learning protocols. This integrative platform utilizes a suite of HTP molecular tool sets to create HTP genetic design libraries, which are derived from, inter alia, scientific insight and iterative pattern recognition.
    Type: Application
    Filed: December 20, 2019
    Publication date: April 23, 2020
    Inventors: Vytas SunSpiral, Jennifer Fredlund, Hassan Abdulla, Paolo Boccazzi, Sean Poust, Sara da Luz Areosa Cleto, Brian Chaikind, Dylan Vaughan, Kenneth S. Bruno, Patrick Westfall, Edyta Szewczyk, Kyle Rothschild-Mancinelli, Arthur Muir Fong, III
  • HTP GENOMIC ENGINEERING PLATFORM FOR IMPROVING FUNGAL STRAINS
    Publication number: 20200071693
    Abstract: The present disclosure provides a HTP genomic engineering platform for improving filamentous fungal cells that is computationally driven and integrates molecular biology, automation, and advanced machine learning protocols. This integrative platform utilizes a suite of HTP molecular tool sets to create HTP genetic design libraries, which are derived from, inter alia, scientific insight and iterative pattern recognition.
    Type: Application
    Filed: October 11, 2019
    Publication date: March 5, 2020
    Inventors: Vytas Sunspiral, Jennifer Fredlund, Hassan Abdulla, Paolo Boccazzi, Sean Poust, Sara da Luz Areaosa Cleto, Brian Chaikind, Dylan Vaughan, Kenneth S. Bruno, Patrick Westfall, Edyta Szewczyk, Kyle Rothschild-Mancinelli, Arthur Muir FONG, III
  • METHOD TO BUILD FUNGAL PRODUCTION STRAINS USING AUTOMATED STEPS FOR GENETIC MANIPULATION AND STRAIN PURIFICATION
    Publication number: 20190323036
    Abstract: The present disclosure provides a high-throughput (HTP) microbial genomic engineering method and system for transforming, screening, and selecting filamentous fungal cells that utilizes automation. The method and system utilize HTP selection and counter-selection to purify homokaryotic transformed filamentous fungal cells. Furthermore, the present disclosure provides a method for producing and long-term storage of protoplasts derived from filamentous fungal cells.
    Type: Application
    Filed: June 26, 2019
    Publication date: October 24, 2019
    Inventors: Kenneth S. BRUNO, Patrick WESTFALL, Edyta SZEWCZYK, Kyle ROTHSCHILD-MANCINELLI
  • METHODS OF DEVELOPING TERPENE SYNTHASE VARIANTS
    Publication number: 20120270260
    Abstract: The present disclosure relates to methods of developing terpene synthase variants through engineered host cells. Particularly, the disclosure provides methods of developing terpene synthase variants with improved in vivo performance that are useful in the commercial production of terpene products. Further encompassed in the present disclosure are superior terpene synthase variants and host cells comprising such terpene synthase variants.
    Type: Application
    Filed: July 5, 2012
    Publication date: October 25, 2012
    Applicant: AMYRIS, INC.
    Inventors: Lishan Zhao, Lan Xu, Patrick Westfall, Andrew Main
  • Methods of developing terpene synthase variants
    Patent number: 8236512
    Abstract: The present disclosure relates to methods of developing terpene synthase variants through engineered host cells. Particularly, the disclosure provides methods of developing terpene synthase variants with improved in vivo performance that are useful in the commercial production of terpene products. Further encompassed in the present disclosure are superior terpene synthase variants and host cells comprising such terpene synthase variants.
    Type: Grant
    Filed: February 1, 2012
    Date of Patent: August 7, 2012
    Assignee: Amyris, Inc.
    Inventors: Lishan Zhao, Lan Xu, Patrick Westfall, Andrew Main