Patents by Inventor Reshma Shetty

Reshma Shetty 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).

  • Patent number: 10119975
    Abstract: Systems, methods, libraries, kits, and computer software tools are provided for designing and producing engineered cells. Such engineered cells can be used for cell state quantification, such as genome, transcriptome and/or proteome quantification. In one aspect, an engineered cell having a plurality of artificially designed oligonucleotides introduced into the genome of the cell is provided. The oligonucleotides are each located in proximity of a gene of interest encoding a protein of interest, and are different from one another. The oligonucleotides can each encode a unique peptide tag for each protein of interest, wherein each peptide tag has a unique quantitatively measurable value such as mass-to-charge ratio which can be quantified by a mass spectrometer. The engineered cell is capable of expressing a plurality of proteins of interest each fused to its corresponding unique peptide tag, wherein each peptide tag is capable of being released therefrom.
    Type: Grant
    Filed: November 29, 2016
    Date of Patent: November 6, 2018
    Assignee: Ginkgo Bioworks, Inc.
    Inventors: Reshma Shetty, Thomas F. Knight, Jr., Randall D. Rettberg
  • Patent number: 9777305
    Abstract: Provided herein are methods for the assembly of a polynucleic acid sequence that is at least partially carried out on a microfluidic device; methods for the preparation of a library of polynucleic acid sequences; microfluidic devices; methods for designing nucleic acid sequences; methods for planning the assembly of a polynucleic acid sequence from a plurality of nucleic acid sequences; systems comprising components for carrying out these methods; computer programs which, when run on a computer, implements these methods; and computer readable medium or carrier signals encoding such a computer program.
    Type: Grant
    Filed: June 23, 2011
    Date of Patent: October 3, 2017
    Assignee: Iti Scotland Limited
    Inventors: Austin Che, Tom Knight, Barry Canton, Jason Kelly, Reshma Shetty, Maiwenn Kersaudy Kerhoas, Farid Amalou, Will Shu
  • Publication number: 20170173086
    Abstract: The present disclosure provides engineered genetic systems and methods to confer the ability to target and degrade undesirable nuclic acids in an organism so as to combat gastrointestinal, skin or urinary tract disease and infection, prevent the spread of antibiotic resistance, and/or decontaminate environmental pathogens. The engineered genetic system can also be used for the therapeutic treatment of humans and animals. The undesirable nucleic acids can be DNA and/or RNA.
    Type: Application
    Filed: March 25, 2015
    Publication date: June 22, 2017
    Inventors: Patrick Boyle, Reshma Shetty
  • Publication number: 20170074889
    Abstract: Systems, methods, libraries, kits, and computer software tools are provided for designing and producing engineered cells. Such engineered cells can be used for cell state quantification, such as genome, transcriptome and/or proteome quantification. In one aspect, an engineered cell having a plurality of artificially designed oligonucleotides introduced into the genome of the cell is provided. The oligonucleotides are each located in proximity of a gene of interest encoding a protein of interest, and are different from one another. The oligonucleotides can each encode a unique peptide tag for each protein of interest, wherein each peptide tag has a unique quantitatively measurable value such as mass-to-charge ratio which can be quantified by a mass spectrometer. The engineered cell is capable of expressing a plurality of proteins of interest each fused to its corresponding unique peptide tag, wherein each peptide tag is capable of being released therefrom.
    Type: Application
    Filed: November 29, 2016
    Publication date: March 16, 2017
    Inventors: Reshma Shetty, Thomas F. Knight, JR., Randall D. Rettberg
  • Patent number: 9506167
    Abstract: Systems, methods, libraries, kits, and computer software tools are provided for designing and producing engineered cells. Such engineered cells can be used for cell state quantification, such as genome, transcriptome and/or proteome quantification. In one aspect, an engineered cell having a plurality of artificially designed oligonucleotides introduced into the genome of the cell is provided. The oligonucleotides are each located in proximity of a gene of interest encoding a protein of interest, and are different from one another. The oligonucleotides can each encode a unique peptide tag for each protein of interest, wherein each peptide tag has a unique quantitatively measurable value such as mass-to-charge ratio which can be quantified by a mass spectrometer. The engineered cell is capable of expressing a plurality of proteins of interest each fused to its corresponding unique peptide tag, wherein each peptide tag is capable of being released therefrom.
    Type: Grant
    Filed: July 27, 2012
    Date of Patent: November 29, 2016
    Assignee: GINKGO BIOWORKS, INC.
    Inventors: Reshma Shetty, Thomas F. Knight, Jr., Randall D. Rettberg
  • Patent number: 8999679
    Abstract: The present invention provides a method for the assembly of a polynucleic acid sequence from a plurality of nucleic acid sequences in which the polynucleic acid sequence is of a formula Nn+1, in which N represents a nucleic acid sequence and where n is 1 or greater than 1 and each N may be the same or a different nucleic acid sequence, in which the method comprises: (i) providing a first nucleic acid sequence N1 which has an oligonucleotide linker sequence L13 at the 3?-end of the nucleic acid sequence; (ii) providing a second nucleic acid sequence N2 which optionally has an oligonucleotide linker sequence L23? at the 3?-end of the nucleic acid sequence and which has an oligonucleotide linker sequence L25? at the 5?-end of the nucleic acid sequence, wherein the 5?-end linker sequence L25? of nucleic acid sequence N2 is complementary to the 3?-end linker sequence L13? of nucleic acid sequence N1; (iii) optionally providing one or more additional nucleic acid sequences N, wherein nucleic acid sequence N2 has an
    Type: Grant
    Filed: December 18, 2009
    Date of Patent: April 7, 2015
    Assignee: Iti Scotland Limited
    Inventors: Austin Che, Tom Knight, Barry Canton, Jason Kelly, Reshma Shetty
  • Publication number: 20140030766
    Abstract: The present invention provides a method for the assembly of a polynucleic acid sequence from a plurality of nucleic acid sequences in which the polynucleic acid sequence is of a formula Nn+1, in which N represents a nucleic acid sequence and where n is 1 or greater than 1 and each N may be the same or a different nucleic acid sequence, in which the method comprises: (i) providing a first nucleic acid sequence N1 which has an oligonucleotide linker sequence L13? at the 3?-end of the nucleic acid sequence; (ii) providing a second nucleic acid sequence N2 which optionally has an oligonucleotide linker sequence L23? at the 3?-end of the nucleic acid sequence and which has an oligonucleotide linker sequence L25? at the 5?-end of the nucleic acid sequence, wherein the 5?-end linker sequence L25? of nucleic acid sequence N2 is complementary to the 3?-end linker sequence L13? of nucleic acid sequence N1; (iii) optionally providing one or more additional nucleic acid sequences N, wherein nucleic acid sequence N2
    Type: Application
    Filed: June 23, 2011
    Publication date: January 30, 2014
    Inventors: Austin Che, Tom Knight, Barry Canton, Jason Kelly, Reshma Shetty, Maiwenn Kersaudy Kerhoas, Farid Amalou, Wenmiao Shu
  • Publication number: 20130029879
    Abstract: Systems, methods, libraries, kits, and computer software tools are provided for designing and producing engineered cells. Such engineered cells can be used for cell state quantification, such as genome, transcriptome and/or proteome quantification. In one aspect, an engineered cell having a plurality of artificially designed oligonucleotides introduced into the genome of the cell is provided. The oligonucleotides are each located in proximity of a gene of interest encoding a protein of interest, and are different from one another. The oligonucleotides can each encode a unique peptide tag for each protein of interest, wherein each peptide tag has a unique quantitatively measurable value such as mass-to-charge ratio which can be quantified by a mass spectrometer. The engineered cell is capable of expressing a plurality of proteins of interest each fused to its corresponding unique peptide tag, wherein each peptide tag is capable of being released therefrom.
    Type: Application
    Filed: July 27, 2012
    Publication date: January 31, 2013
    Applicant: Ginkgo BioWorks
    Inventors: Reshma Shetty, Thomas F. Knight, JR., Randall D. Rettberg
  • Publication number: 20120040870
    Abstract: The present invention provides a method for the assembly of a polynucleic acid sequence from a plurality of nucleic acid sequences in which the polynucleic acid sequence is of a formula Nn+1, in which N represents a nucleic acid sequence and where n is 1 or greater than 1 and each N may be the same or a different nucleic acid sequence, in which the method comprises: (i) providing a first nucleic acid sequence N1 which has an oligonucleotide linker sequence L13 at the 3?-end of the nucleic acid sequence; (ii) providing a second nucleic acid sequence N2 which optionally has an oligonucleotide linker sequence L23? at the 3?-end of the nucleic acid sequence and which has an oligonucleotide linker sequence L25? at the 5?-end of the nucleic acid sequence, wherein the 5?-end linker sequence L25? of nucleic acid sequence N2 is complementary to the 3?-end linker sequence L13? of nucleic acid sequence N1; (iii) optionally providing one or more additional nucleic acid sequences N, wherein nucleic acid sequence N2 has an
    Type: Application
    Filed: December 18, 2009
    Publication date: February 16, 2012
    Applicant: ITI SCOTLAND LIMITED
    Inventors: Austin Che, Tom Knight, Barry Canton, Jason Kelly, Reshma Shetty
  • Patent number: 7390785
    Abstract: The invention relates to relatively short peptides (termed ?-conotoxins herein), about 10-25 residues in length, which are naturally available in minute amounts in the venom of the cone snails or analogous to the naturally available peptides, and which preferably include two disulfide bonds.
    Type: Grant
    Filed: November 7, 2005
    Date of Patent: June 24, 2008
    Assignees: The University of Utah Research Foundation, Cognetix, Inc.
    Inventors: Craig Walker, Reshma Shetty, Baldomero M. Olivera, David Hooper, Richard Jacobsen, Doug Steel, Robert Jones
  • Publication number: 20070173457
    Abstract: The invention relates to relatively short peptides (termed ?-conotoxins herein), about 10-25 residues in length, which are naturally available in minute amounts in the venom of the cone snails or analogous to the naturally available peptides, and which preferably include two disulfide bonds.
    Type: Application
    Filed: November 7, 2005
    Publication date: July 26, 2007
    Applicants: The University of Utah Research Foundation, Cognetix, Inc.
    Inventors: Craig Walker, Reshma Shetty, Baldomero Olivera, David Hooper, Richard Jacobsen, Doug Steel, Robert Jones
  • Publication number: 20060223984
    Abstract: This invention relates to relatively short peptides about 25-40 residues in length, which are naturally available in minute amounts in the venom of the cone snails or analogs to the naturally available peptides, and which include three cyclizing disulfide linkages and one or more ?carboxyglutamate residues.
    Type: Application
    Filed: August 26, 2003
    Publication date: October 5, 2006
    Applicants: Cognetix Inc., University of Utah Research Foundation
    Inventors: Michael Fainzilber, Karel Kits, Alma Burlingame, Baldomero Olivera, Craig Walker, Maren Watkins, Reshma Shetty, Lourdes Cruz, Julita Imperial, Clark Colledge
  • Publication number: 20050214213
    Abstract: The present invention is directed to conotoxin peptides, derivatives or pharmaceutically acceptable salts thereof. The present invention is further directed to the use of this peptide, derivatives thereof and pharmaceutically acceptable salts thereof for the treatment of disorders associated with voltage-gated ion channels, voltage-gated ligand channels and/or receptors. The invention is further directed to nucleic acid sequences encoding the conotoxin peptides and encoding propeptides, as well as the propeptides.
    Type: Application
    Filed: April 4, 2005
    Publication date: September 29, 2005
    Applicants: University of Utah, Cognetix
    Inventors: Baldomero Olivera, J. McIntosh, Maren Watkins, James Garrett, Lourdes Cruz, Michelle Grilley, Robert Schoenfeld, Craig Walker, Reshma Shetty, Robert Jones
  • Publication number: 20050124547
    Abstract: The invention relates to relatively short peptides (termed ?-conotoxins herein), about 10-25 residues in length, which are naturally available in minute amounts in the venom of the cone snails or analogous to the naturally available peptides, and which preferably include two disulfide bonds.
    Type: Application
    Filed: July 16, 2003
    Publication date: June 9, 2005
    Applicants: The University of Utah Research Foundation, Cognetix, Inc.
    Inventors: Craig Walker, Reshma Shetty, Baldomero Olivera, David Hooper, Richard Jacobsen, Doug Steel, Robert Jones
  • Publication number: 20050096270
    Abstract: The invention relates to relatively short peptides (termed 1-conotoxins herein), about 30-50 residues in length, which are naturally available in minute amounts in the venom of the cone snails or analogous to the naturally available peptides, and which preferably include four disulfide bonds.
    Type: Application
    Filed: July 20, 2004
    Publication date: May 5, 2005
    Applicants: University of Utah Research Foundation, Cognetix, Inc.
    Inventors: Craig Walker, Reshma Shetty, Elsie Jimenez, J. McIntosh, Baldomero Olivera, Maren Watkins, Robert Jones, Gregory Shen
  • Patent number: 6767895
    Abstract: The invention relates to relatively short peptides (termed I-conotoxins herein), about 30-50 residues in length, which are naturally available in minute amounts in the venom of the cone snails or analogous to the naturally available peptides, and which preferably include four disulfide bonds.
    Type: Grant
    Filed: June 29, 2001
    Date of Patent: July 27, 2004
    Assignees: Cognetix, Inc., University of Utah Research Foundation
    Inventors: Craig S. Walker, Reshma Shetty, Elsie C. Jimenez, J. Michael McIntosh, Baldomero M. Olivera, Maren Watkins, Robert M. Jones, Gregory S. Shen
  • Patent number: 6630573
    Abstract: The invention relates to relatively short peptides (termed &tgr;-conotoxins herein), about 10-25 residues in length, which are naturally available in minute amounts in the venom of the cone snails or analogous to the naturally available peptides, and which preferably include two disulfide bonds.
    Type: Grant
    Filed: February 4, 2000
    Date of Patent: October 7, 2003
    Assignees: Cognetix, Inc., University of Utah Research Foundation
    Inventors: Craig Walker, Reshma Shetty, Baldomero M. Olivera, David Hooper, Richard Jacobsen, Doug Steele, Robert Jones
  • Patent number: 6624288
    Abstract: This invention relates to relatively short peptides about 25-40 residues in length, which are naturally available in minute amounts in the venom of the cone snails or analogs to the naturally available peptides, and which include three cyclizing disulfide linkages and one or more &ggr;-carboxyglutamate residues.
    Type: Grant
    Filed: December 15, 1998
    Date of Patent: September 23, 2003
    Assignees: Cognetix, Inc., University of Utah Research Foundation
    Inventors: Michael Fainzilber, Karel S. Kits, Alma L. Burlingame, Baldomero M. Olivera, Craig Walker, Maren Watkins, Reshma Shetty, Lourdes J. Cruz, Julita Imperial, Clark Colledge
  • Publication number: 20020102607
    Abstract: The invention relates to relatively short peptides (termed I-conotoxins herein), about 30-50 residues in length, which are naturally available in minute amounts in the venom of the cone snails or analogous to the naturally available peptides, and which preferably include four disulfide bonds.
    Type: Application
    Filed: June 29, 2001
    Publication date: August 1, 2002
    Applicant: UNIVERSITY OF UTAH RESEARCH FOUNDATION
    Inventors: Craig S. Walker, Reshma Shetty, Elsie C. Jimenez, J. Michael McIntosh, Baldomero M. Olivera, Maren Watkins, Robert M. Jones, Gregory S. Shen