Patents by Inventor Farren J. Isaacs

Farren J. Isaacs 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).

  • Processes and host cells for genome, pathway, and biomolecular engineering
    Patent number: 11421223
    Abstract: The present disclosure provides compositions and methods for genomic engineering.
    Type: Grant
    Filed: June 11, 2019
    Date of Patent: August 23, 2022
    Assignee: enEvolv, Inc.
    Inventors: Jay H. Konieczka, James E. Spoonamore, Ilan E. Wapinski, Farren J. Isaacs, Gregory B. Foley
  • Compositions and methods for biocontainment of microorganisms
    Patent number: 11408007
    Abstract: Methods and strategies for introducing genetic safeguards into microorganisms, genetically modified organisms (GMO) including the safeguards, and methods of use thereof are provided. The genetic safeguards generally impart a low escape frequency, are robust, and are modular. Safeguards with low escape frequency prevent the rise of mutants escaping defined media and limit growth in the wild. Robust safeguards retain wild-type levels of fitness while also maintaining containment in diverse growth conditions.
    Type: Grant
    Filed: September 28, 2015
    Date of Patent: August 9, 2022
    Assignee: YALE UNIVERSITY
    Inventors: Farren J. Isaacs, Ryan Gallagher, Jaymin Patel, Alexis Rovner
  • Compositions and methods of use thereof for making polypeptides with many instances of nonstandard amino acids
    Patent number: 10501734
    Abstract: Compositions, systems, and methods for preparation of polypeptides having multiple iterations of non-standard amino acids are provided. The compositions and method can be used to produce recombinant proteins at a greater yield than the same or similar polypeptides made using conventional compositions, systems, and methods. Accordingly, in some embodiments, the polypeptides are ones that could not be made using conventional methods and reagents, or could not be made a sufficient yield or purity to serve a practical purpose using conventional methods and reagents. Polypeptides made using the disclosed compositions, systems, and methods are also provided.
    Type: Grant
    Filed: February 6, 2015
    Date of Patent: December 10, 2019
    Assignee: Yale University
    Inventors: Farren J. Isaacs, Miriam Amiram, Adrian Haimovich, Dieter Söll
  • PROCESSES AND HOST CELLS FOR GENOME, PATHWAY, AND BIOMOLECULAR ENGINEERING
    Publication number: 20190309289
    Abstract: The present disclosure provides compositions and methods for genomic engineering.
    Type: Application
    Filed: June 11, 2019
    Publication date: October 10, 2019
    Inventors: Jay H. KONIECZKA, James E. SPOONAMORE, Ilan E. WAPINSKI, Farren J. ISAACS, Gregory B. FOLEY
  • Processes and host cells for genome, pathway, and biomolecular engineering
    Patent number: 10370654
    Abstract: The present disclosure provides compositions and methods for genomic engineering.
    Type: Grant
    Filed: March 1, 2018
    Date of Patent: August 6, 2019
    Assignee: enEvolv, Inc.
    Inventors: Jay H. Konieczka, James E. Spoonamore, Ilan N. Wapinski, Farren J. Isaacs, Gregory B. Foley
  • Cis/trans riboregulators
    Patent number: 10208312
    Abstract: The present invention provides nucleic acid molecules, DNA constructs, plasmids, and methods for post-transcriptional regulation of gene expression using RNA molecules to both repress and activate translation of an open reading frame. Repression of gene expression is achieved through the presence of a regulatory nucleic acid element (the cis-repressive RNA or crRNA) within the 5? untranslated region (5? UTR) of an mRNA molecule. The nucleic acid element forms a hairpin (stem/loop) structure through complementary base pairing. The hairpin blocks access to the mRNA transcript by the ribosome, thereby preventing translation. In particular, in embodiments of the invention designed to operate in prokaryotic cells, the stem of the hairpin secondary structure sequesters the ribosome binding site (RBS). In embodiments of the invention designed to operate in eukaryotic cells, the stem of the hairpin is positioned upstream of the start codon, anywhere within the 5? UTR of an mRNA.
    Type: Grant
    Filed: November 30, 2016
    Date of Patent: February 19, 2019
    Assignee: TRUSTEES OF BOSTON UNIVERSITY
    Inventors: James J. Collins, Farren J. Isaacs, Charles R. Cantor, Daniel J. Dwyer
  • PROCESSES AND HOST CELLS FOR GENOME, PATHWAY, AND BIOMOLECULAR ENGINEERING
    Publication number: 20180320170
    Abstract: The present disclosure provides compositions and methods for genomic engineering.
    Type: Application
    Filed: March 1, 2018
    Publication date: November 8, 2018
    Inventors: Jay H. Konieczka, James E. Spoonamore, Ilan N. Wapinski, Farren J. Isaacs, Gregory B. Foley
  • CIS/TRANS RIBOREGULATORS
    Publication number: 20180142247
    Abstract: The present invention provides nucleic acid molecules, DNA constructs, plasmids, and methods for post-transcriptional regulation of gene expression using RNA molecules to both repress and activate translation of an open reading frame. Repression of gene expression is achieved through the presence of a regulatory nucleic acid element (the cis-repressive RNA or crRNA) within the 5? untranslated region (5? UTR) of an mRNA molecule. The nucleic acid element forms a hairpin (stem/loop) structure through complementary base pairing. The hairpin blocks access to the mRNA transcript by the ribosome, thereby preventing translation. In particular, in embodiments of the invention designed to operate in prokaryotic cells, the stem of the hairpin secondary structure sequesters the ribosome binding site (RBS). In embodiments of the invention designed to operate in eukaryotic cells, the stem of the hairpin is positioned upstream of the start codon, anywhere within the 5? UTR of an mRNA.
    Type: Application
    Filed: November 30, 2016
    Publication date: May 24, 2018
    Applicant: TRUSTEES OF BOSTON UNIVERSITY
    Inventors: James J. Collins, Farren J. Isaacs, Charles R. Cantor, Daniel J. Dwyer
  • Processes and host cells for genome, pathway, and biomolecular engineering
    Patent number: 9944925
    Abstract: The present disclosure provides compositions and methods for genomic engineering.
    Type: Grant
    Filed: August 4, 2014
    Date of Patent: April 17, 2018
    Assignee: ENEVOLV, INC.
    Inventors: Jay H. Konieczka, James E. Spoonamore, Ilan N. Wapinski, Farren J. Isaacs, Gregory B. Foley
  • COMPOSITIONS AND METHODS FOR BIOCONTAINMENT OF MICROORGANISMS
    Publication number: 20170240908
    Abstract: Methods and strategies for introducing genetic safeguards into microorganisms, genetically modified organisms (GMO) including the safeguards, and methods of use thereof are provided. The genetic safeguards generally impart a low escape frequency, are robust, and are modular. Safeguards with low escape frequency prevent the rise of mutants escaping defined media and limit growth in the wild. Robust safeguards retain wild-type levels of fitness while also maintaining containment in diverse growth conditions.
    Type: Application
    Filed: September 28, 2015
    Publication date: August 24, 2017
    Inventors: Farren J. ISAACS, Ryan GALLAGHER, Jaymin PATEL, Alexis ROVNER
  • Cis/trans riboregulators
    Patent number: 9534224
    Abstract: The present invention provides nucleic acid molecules, DNA constructs, plasmids, and methods for post-transcriptional regulation of gene expression using RNA molecules to both repress and activate translation of an open reading frame. Repression of gene expression is achieved through the presence of a regulatory nucleic acid element (the cis-repressive RNA or crRNA) within the 5? untranslated region (5? UTR) of an mRNA molecule. The nucleic acid element forms a hairpin (stem/loop) structure through complementary base pairing. The hairpin blocks access to the mRNA transcript by the ribosome, thereby preventing translation. In particular, in embodiments of the invention designed to operate in prokaryotic cells, the stem of the hairpin secondary structure sequesters the ribosome binding site (RBS). In embodiments of the invention designed to operate in eukaryotic cells, the stem of the hairpin is positioned upstream of the start codon, anywhere within the 5? UTR of an mRNA.
    Type: Grant
    Filed: November 14, 2003
    Date of Patent: January 3, 2017
    Assignee: Trustees of Boston University
    Inventors: James J. Collins, Farren J. Isaacs, Charles R. Cantor, Daniel J. Dwyer
  • Compositions and Methods Of Use Thereof For Making Polypeptides With Many Instances Of Nonstandard Amino Acids
    Publication number: 20160355802
    Abstract: Compositions, systems, and methods for preparation of polypeptides having multiple iterations of non-standard amino acids are provided. The compositions and method can be used to produce recombinant proteins at a greater yield than the same or similar polypeptides made using conventional compositions, systems, and methods. Accordingly, in some embodiments, the polypeptides are ones that could not be made using conventional methods and reagents, or could not be made a sufficient yield or purity to serve a practical purpose using conventional methods and reagents. Polypeptides made using the disclosed compositions, systems, and methods are also provided.
    Type: Application
    Filed: February 6, 2015
    Publication date: December 8, 2016
    Inventors: Farren J. Isaacs, Miriam Amiram, Adrian Haimovich, Dieter Söll
  • PROCESSES AND HOST CELLS FOR GENOME, PATHWAY, AND BIOMOLECULAR ENGINEERING
    Publication number: 20160186168
    Abstract: The present disclosure provides compositions and methods for genomic engineering.
    Type: Application
    Filed: August 4, 2014
    Publication date: June 30, 2016
    Inventors: Jay H. Konieczka, James E. Spoonamore, Ilan N. Wapinski, Farren J. Isaacs, Gregory B. Foley
  • Multiplex automated genome engineering
    Patent number: 8569041
    Abstract: The present invention relates to automated methods of introducing multiple nucleic acid sequences into one or more target cells.
    Type: Grant
    Filed: March 5, 2012
    Date of Patent: October 29, 2013
    Assignee: President and Fellows of Harvard College
    Inventors: George M. Church, Harris H. Wang, Farren J. Isaacs
  • Multiplex Automated Genome Engineering
    Publication number: 20130005025
    Abstract: The present invention relates to automated methods of introducing multiple nucleic acid sequences into one or more target cells.
    Type: Application
    Filed: March 5, 2012
    Publication date: January 3, 2013
    Applicant: President and Fellows of Harvard College
    Inventors: George M. Church, Harris H. Wang, Farren J. Isaacs
  • Multiplex automated genome engineering
    Patent number: 8153432
    Abstract: The present invention relates to automated methods of introducing multiple nucleic acid sequences into one or more target cells.
    Type: Grant
    Filed: April 21, 2009
    Date of Patent: April 10, 2012
    Assignee: President and Fellows of Harvard College
    Inventors: George M. Church, Harris H. Wang, Farren J. Isaacs
  • MULTIPLEX AUTOMATED GENOME ENGINEERING
    Publication number: 20090317910
    Abstract: The present invention relates to automated methods of introducing multiple nucleic acid sequences into one or more target cells.
    Type: Application
    Filed: April 21, 2009
    Publication date: December 24, 2009
    Applicant: President and Fellows of Harvard College
    Inventors: George M. Church, Harris H. Wang, Farren J. Isaacs