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).
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Patent number: 10119975Abstract: 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: GrantFiled: November 29, 2016Date of Patent: November 6, 2018Assignee: Ginkgo Bioworks, Inc.Inventors: Reshma Shetty, Thomas F. Knight, Jr., Randall D. Rettberg
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Patent number: 9777305Abstract: 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: GrantFiled: June 23, 2011Date of Patent: October 3, 2017Assignee: Iti Scotland LimitedInventors: Austin Che, Tom Knight, Barry Canton, Jason Kelly, Reshma Shetty, Maiwenn Kersaudy Kerhoas, Farid Amalou, Will Shu
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Publication number: 20170173086Abstract: 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: ApplicationFiled: March 25, 2015Publication date: June 22, 2017Inventors: Patrick Boyle, Reshma Shetty
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Publication number: 20170074889Abstract: 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: ApplicationFiled: November 29, 2016Publication date: March 16, 2017Inventors: Reshma Shetty, Thomas F. Knight, JR., Randall D. Rettberg
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Patent number: 9506167Abstract: 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: GrantFiled: July 27, 2012Date of Patent: November 29, 2016Assignee: GINKGO BIOWORKS, INC.Inventors: Reshma Shetty, Thomas F. Knight, Jr., Randall D. Rettberg
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Patent number: 8999679Abstract: 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 anType: GrantFiled: December 18, 2009Date of Patent: April 7, 2015Assignee: Iti Scotland LimitedInventors: Austin Che, Tom Knight, Barry Canton, Jason Kelly, Reshma Shetty
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Publication number: 20140030766Abstract: 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 N2Type: ApplicationFiled: June 23, 2011Publication date: January 30, 2014Inventors: Austin Che, Tom Knight, Barry Canton, Jason Kelly, Reshma Shetty, Maiwenn Kersaudy Kerhoas, Farid Amalou, Wenmiao Shu
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Publication number: 20130029879Abstract: 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: ApplicationFiled: July 27, 2012Publication date: January 31, 2013Applicant: Ginkgo BioWorksInventors: Reshma Shetty, Thomas F. Knight, JR., Randall D. Rettberg
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Publication number: 20120040870Abstract: 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 anType: ApplicationFiled: December 18, 2009Publication date: February 16, 2012Applicant: ITI SCOTLAND LIMITEDInventors: Austin Che, Tom Knight, Barry Canton, Jason Kelly, Reshma Shetty
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Patent number: 7390785Abstract: 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: GrantFiled: November 7, 2005Date of Patent: June 24, 2008Assignees: The University of Utah Research Foundation, Cognetix, Inc.Inventors: Craig Walker, Reshma Shetty, Baldomero M. Olivera, David Hooper, Richard Jacobsen, Doug Steel, Robert Jones
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Publication number: 20070173457Abstract: 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: ApplicationFiled: November 7, 2005Publication date: July 26, 2007Applicants: The University of Utah Research Foundation, Cognetix, Inc.Inventors: Craig Walker, Reshma Shetty, Baldomero Olivera, David Hooper, Richard Jacobsen, Doug Steel, Robert Jones
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Publication number: 20060223984Abstract: 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: ApplicationFiled: August 26, 2003Publication date: October 5, 2006Applicants: Cognetix Inc., University of Utah Research FoundationInventors: Michael Fainzilber, Karel Kits, Alma Burlingame, Baldomero Olivera, Craig Walker, Maren Watkins, Reshma Shetty, Lourdes Cruz, Julita Imperial, Clark Colledge
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Publication number: 20050214213Abstract: 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: ApplicationFiled: April 4, 2005Publication date: September 29, 2005Applicants: University of Utah, CognetixInventors: Baldomero Olivera, J. McIntosh, Maren Watkins, James Garrett, Lourdes Cruz, Michelle Grilley, Robert Schoenfeld, Craig Walker, Reshma Shetty, Robert Jones
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Publication number: 20050124547Abstract: 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: ApplicationFiled: July 16, 2003Publication date: June 9, 2005Applicants: The University of Utah Research Foundation, Cognetix, Inc.Inventors: Craig Walker, Reshma Shetty, Baldomero Olivera, David Hooper, Richard Jacobsen, Doug Steel, Robert Jones
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Publication number: 20050096270Abstract: 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: ApplicationFiled: July 20, 2004Publication date: May 5, 2005Applicants: University of Utah Research Foundation, Cognetix, Inc.Inventors: Craig Walker, Reshma Shetty, Elsie Jimenez, J. McIntosh, Baldomero Olivera, Maren Watkins, Robert Jones, Gregory Shen
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Patent number: 6767895Abstract: 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: GrantFiled: June 29, 2001Date of Patent: July 27, 2004Assignees: Cognetix, Inc., University of Utah Research FoundationInventors: Craig S. Walker, Reshma Shetty, Elsie C. Jimenez, J. Michael McIntosh, Baldomero M. Olivera, Maren Watkins, Robert M. Jones, Gregory S. Shen
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Patent number: 6630573Abstract: 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: GrantFiled: February 4, 2000Date of Patent: October 7, 2003Assignees: Cognetix, Inc., University of Utah Research FoundationInventors: Craig Walker, Reshma Shetty, Baldomero M. Olivera, David Hooper, Richard Jacobsen, Doug Steele, Robert Jones
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Patent number: 6624288Abstract: 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: GrantFiled: December 15, 1998Date of Patent: September 23, 2003Assignees: Cognetix, Inc., University of Utah Research FoundationInventors: Michael Fainzilber, Karel S. Kits, Alma L. Burlingame, Baldomero M. Olivera, Craig Walker, Maren Watkins, Reshma Shetty, Lourdes J. Cruz, Julita Imperial, Clark Colledge
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Publication number: 20020102607Abstract: 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: ApplicationFiled: June 29, 2001Publication date: August 1, 2002Applicant: UNIVERSITY OF UTAH RESEARCH FOUNDATIONInventors: Craig S. Walker, Reshma Shetty, Elsie C. Jimenez, J. Michael McIntosh, Baldomero M. Olivera, Maren Watkins, Robert M. Jones, Gregory S. Shen