Patents by Inventor Sydney Brenner
Sydney Brenner 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: 9863937Abstract: The present invention relates to methods and compositions for detecting an interaction between a protein and a ligand, comprising: (i) binding at least one fluorescent molecular rotor to said ligand or protein; and (ii) detecting a change in fluorescence emitted by said fluorescent molecular rotor after contact of the bound fluorescent molecular rotor with the other of said ligand or protein, thereby detecting an interaction between the ligand and the protein, wherein the fluorescent molecular rotor comprises: a rotating ?-bond; an electron-donating moiety; an electron-accepting moiety; and a ?-conjugated linker.Type: GrantFiled: September 26, 2013Date of Patent: January 9, 2018Assignee: Agency for Science, Technology and ResearchInventors: Sydney Brenner, Yin Nah Teo, Farid Ghadessy, Leng Peng Walter Goh, Min Yen Lee
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Patent number: 9845493Abstract: The invention relates to cleavable chemistry in general, and in particular, to tunable fluorescence using cleavable linkers present in fluorochrome-quencher conjugates.Type: GrantFiled: April 21, 2014Date of Patent: December 19, 2017Assignee: Agency for Science, Technology and ResearchInventors: Sydney Brenner, Yin Nah Teo, Pee Mei Tan
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Patent number: 9670536Abstract: Aspects of the present invention include methods and compositions for determining the number of individual polynucleotide molecules originating from the same genomic region of the same original sample that have been sequenced in a particular sequence analysis configuration or process. In these aspects of the invention, a degenerate base region (DBR) is attached to the starting polynucleotide molecules that are subsequently sequenced (e.g., after certain process steps are performed, e.g., amplification and/or enrichment). The number of different DBR sequences present in a sequencing run can be used to determine/estimate the number of different starting polynucleotides that have been sequenced. DBRs can be used to enhance numerous different nucleic acid sequence analysis applications, including allowing higher confidence allele call determinations in genotyping applications.Type: GrantFiled: May 8, 2014Date of Patent: June 6, 2017Assignee: POPULATION GENETICS TECHNOLOGIES LTD.Inventors: James Casbon, Sydney Brenner, Robert Osborne, Conrad Lichtenstein, Andreas Claas
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Patent number: 9410150Abstract: Aspects of the present invention are drawn to processes for moving a region of interest in a polynucleotide from a first position to a second position with regard to a domain within the polynucleotide, also referred to as a “reflex method”. In certain embodiments, the reflex method results in moving a region of interest into functional proximity to specific domain elements present in the polynucleotide (e.g., primer sites and/or multiplex identifier). Compositions, kits and systems that find use in carrying out the reflex processes described herein are also provided.Type: GrantFiled: November 12, 2015Date of Patent: August 9, 2016Assignee: 10X Genomics, Inc.Inventors: Sydney Brenner, Gi Mikawa, Robert Osborne, Andrew Slatter
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Patent number: 9410149Abstract: Aspects of the present invention are drawn to processes for moving a region of interest in a polynucleotide from a first position to a second position with regard to a domain within the polynucleotide, also referred to as a “reflex method”. In certain embodiments, the reflex method results in moving a region of interest into functional proximity to specific domain elements present in the polynucleotide (e.g., primer sites and/or multiplex identifier). Compositions, kits and systems that find use in carrying out the reflex processes described herein are also provided.Type: GrantFiled: November 6, 2015Date of Patent: August 9, 2016Assignee: 10X Genomics, Inc.Inventors: Sydney Brenner, Gi Mikawa, Robert Osborne, Andrew Slatter
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Publication number: 20160195519Abstract: The present invention relates to methods and compositions for detecting an interaction between a protein and a ligand, comprising: (i) binding at least one fluorescent molecular rotor to said ligand or protein; and (ii) detecting a change in fluorescence emitted by said fluorescent molecular rotor after contact of the bound fluorescent molecular rotor with the other of said ligand or protein, thereby detecting an interaction between the ligand and the protein, wherein the fluorescent molecular rotor comprises: a rotating ?-bond; an electron-donating moiety; an electron-accepting moiety; and a ?-conjugated linker.Type: ApplicationFiled: September 26, 2013Publication date: July 7, 2016Inventors: Sydney Brenner, Yin Nah Teo, Farid Ghadessy, Leng Peng Walter Goh, Min Yen Lee
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Publication number: 20160145280Abstract: The invention relates to cleavable chemistry in general, and in particular, to tunable fluorescence using cleavable linkers present in fluorochrome-quencher conjugates.Type: ApplicationFiled: April 21, 2014Publication date: May 26, 2016Applicant: AGENCY FOR SCIENCE, TECHNOLOGY AND RESEARCHInventors: Sydney Brenner, Yin Nah Teo, Pee Mei Tan
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Publication number: 20160076024Abstract: Aspects of the present invention are drawn to processes for moving a region of interest in a polynucleotide from a first position to a second position with regard to a domain within the polynucleotide, also referred to as a “reflex method”. In certain embodiments, the reflex method results in moving a region of interest into functional proximity to specific domain elements present in the polynucleotide (e.g., primer sites and/or MID). Compositions, kits and systems that find use in carrying out the reflex processes described herein are also provided.Type: ApplicationFiled: November 12, 2015Publication date: March 17, 2016Inventors: Sydney Brenner, Gi Mikawa, Robert Osborne, Andrew Slatter
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Publication number: 20160060693Abstract: Aspects of the present invention are drawn to processes for moving a region of interest in a polynucleotide from a first position to a second position with regard to a domain within the polynucleotide, also referred to as a “reflex method”. In certain embodiments, the reflex method results in moving a region of interest into functional proximity to specific domain elements present in the polynucleotide (e.g., primer sites and/or MID). Compositions, kits and systems that find use in carrying out the reflex processes described herein are also provided.Type: ApplicationFiled: November 6, 2015Publication date: March 3, 2016Inventors: Sydney Brenner, Gi Mikawa, Robert Osborne, Andrew Slatter
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Patent number: 9273354Abstract: An apparatus and system are provided for simultaneously analyzing a plurality of analytes anchored to microparticles. Microparticles each having a uniform population of a single kind of analyte attached are disposed as a substantially immobilized planar array inside of a flow chamber where steps of an analytical process are carried out by delivering a sequence of processing reagents to the microparticles by a fluidic system under microprocessor control. In response to such process steps, an optical signal is generated at the surface of each microparticle which is characteristic of the interaction between the analyte carried by the microparticle and the delivered processing reagent. The plurality of analytes are simultaneously analyzed by collecting and recording images of the optical signals generated by all the microparticles in the planar array.Type: GrantFiled: April 4, 2014Date of Patent: March 1, 2016Assignee: Illumina, Inc.Inventors: John Bridgham, Kevin Corcoran, George Golda, Michael C. Pallas, Sydney Brenner
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Publication number: 20160053303Abstract: Aspects of the present invention are drawn to processes for moving a region of interest in a polynucleotide from a first position to a second position with regard to a domain within the polynucleotide, also referred to as a “reflex method”. In certain embodiments, the reflex method results in moving a region of interest into functional proximity to specific domain elements present in the polynucleotide (e.g., primer sites and/or MID). Compositions, kits and systems that find use in carrying out the reflex processes described herein are also provided.Type: ApplicationFiled: July 6, 2015Publication date: February 25, 2016Inventors: Sydney Brenner, Gi Mikawa, Robert Osborne, Andrew Slatter
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Patent number: 9194001Abstract: The invention provides methods and compositions for attaching oligonucleotide tags to polynucleotides for the purpose of carrying out analytical assays in parallel and for decoding the oligonucleotide tags of polynucleotides selected in such assays. Words, or subunits, of oligonucleotide tags index submixtures in successively more complex sets of submixtures (referred to herein as “tiers” of submixtures) that a polynucleotide goes through while successive words are added to a growing tag. By identifying each word of an oligonucleotide tag, a series of submixtures is identified including the first submixture that contains only a single polynucleotide, thereby providing the identity of the selected polynucleotide. The analysis of the words of an oligonucleotide tag can be carried out in parallel, e.g.Type: GrantFiled: February 24, 2015Date of Patent: November 24, 2015Assignee: Population Genetics Technologies Ltd.Inventor: Sydney Brenner
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Publication number: 20150240302Abstract: The invention provides methods and compositions for attaching oligonucleotide tags to polynucleotides for the purpose of carrying out analytical assays in parallel and for decoding the oligonucleotide tags of polynucleotides selected in such assays. Words, or subunits, of oligonucleotide tags index submixtures in successively more complex sets of submixtures (referred to herein as “tiers” of submixtures) that a polynucleotide goes through while successive words are added to a growing tag. By identifying each word of an oligonucleotide tag, a series of submixtures is identified including the first submixture that contains only a single polynucleotide, thereby providing the identity of the selected polynucleotide. The analysis of the words of an oligonucleotide tag can be carried out in parallel, e.g.Type: ApplicationFiled: February 24, 2015Publication date: August 27, 2015Inventor: Sydney Brenner
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Patent number: 9102980Abstract: Aspects of the present invention are drawn to processes for moving a region of interest in a polynucleotide from a first position to a second position with regard to a domain within the polynucleotide, also referred to as a “reflex method”. In certain embodiments, the reflex method results in moving a region of interest into functional proximity to specific domain elements present in the polynucleotide (e.g., primer sites and/or multiplex indentifier). Compositions, kits and systems that find use in carrying out the reflex processes described herein are also provided.Type: GrantFiled: February 4, 2014Date of Patent: August 11, 2015Assignee: Population Genetics Technologies LTD.Inventors: Sydney Brenner, Gi Mikawa, Robert Osborne, Andrew Slatter
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Patent number: 9018365Abstract: The invention provides methods and compositions for attaching oligonucleotide tags to polynucleotides for the purpose of carrying out analytical assays in parallel and for decoding the oligonucleotide tags of polynucleotides selected in such assays. Words, or subunits, of oligonucleotide tags index submixtures in successively more complex sets of submixtures (referred to herein as “tiers” of submixtures) that a polynucleotide goes through while successive words are added to a growing tag. By identifying each word of an oligonucleotide tag, a series of submixtures is identified including the first submixture that contains only a single polynucleotide, thereby providing the identity of the selected polynucleotide. The analysis of the words of an oligonucleotide tag can be carried out in parallel, e.g.Type: GrantFiled: March 28, 2013Date of Patent: April 28, 2015Assignee: Population Genetics Technologies LtdInventor: Sydney Brenner
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Publication number: 20150031559Abstract: Aspects of the present invention include methods and compositions for determining the number of individual polynucleotide molecules originating from the same genomic region of the same original sample that have been sequenced in a particular sequence analysis configuration or process. In these aspects of the invention, a degenerate base region (DBR) is attached to the starting polynucleotide molecules that are subsequently sequenced (e.g., after certain process steps are performed, e.g., amplification and/or enrichment). The number of different DBR sequences present in a sequencing run can be used to determine/estimate the number of different starting polynucleotides that have been sequenced. DBRs can be used to enhance numerous different nucleic acid sequence analysis applications, including allowing higher confidence allele call determinations in genotyping applications.Type: ApplicationFiled: May 8, 2014Publication date: January 29, 2015Applicant: Population Genetics Technologies LtdInventors: James Casbon, Sydney Brenner, Robert Osborne, Conrad Lichtenstein, Andreas Claas
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Publication number: 20140272985Abstract: Aspects of the present invention are drawn to processes for moving a region of interest in a polynucleotide from a first position to a second position with regard to a domain within the polynucleotide, also referred to as a “reflex method”. In certain embodiments, the reflex method results in moving a region of interest into functional proximity to specific domain elements present in the polynucleotide (e.g., primer sites and/or MID). Compositions, kits and systems that find use in carrying out the reflex processes described herein are also provided.Type: ApplicationFiled: February 4, 2014Publication date: September 18, 2014Applicant: Population Genetics Technologies LTDInventors: SYDNEY BRENNER, GI MIKAWA, ROBERT OSBORNE, ANDREW SLATTER
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Publication number: 20140213464Abstract: An apparatus and system are provided for simultaneously analyzing a plurality of analytes anchored to microparticles. Microparticles each having a uniform population of a single kind of analyte attached are disposed as a substantially immobilized planar array inside of a flow chamber where steps of an analytical process are carried out by delivering a sequence of processing reagents to the microparticles by a fluidic system under microprocessor control. In response to such process steps, an optical signal is generated at the surface of each microparticle which is characteristic of the interaction between the analyte carried by the microparticle and the delivered processing reagent. The plurality of analytes are simultaneously analyzed by collecting and recording images of the optical signals generated by all the microparticles in the planar array.Type: ApplicationFiled: April 4, 2014Publication date: July 31, 2014Applicant: ILLUMINA, INC.Inventors: John Bridgham, Kevin Corcoran, George Golda, Michael C. Pallas, Sydney Brenner
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Patent number: 8741606Abstract: Aspects of the present invention include methods and compositions for determining the number of individual polynucleotide molecules originating from the same genomic region of the same original sample that have been sequenced in a particular sequence analysis configuration or process. In these aspects of the invention, a degenerate base region (DBR) is attached to the starting polynucleotide molecules that are subsequently sequenced (e.g., after certain process steps are performed, e.g., amplification and/or enrichment). The number of different DBR sequences present in a sequencing run can be used to determine/estimate the number of different starting polynucleotides that have been sequenced. DBRs can be used to enhance numerous different nucleic acid sequence analysis applications, including allowing higher confidence allele call determinations in genotyping applications.Type: GrantFiled: March 29, 2013Date of Patent: June 3, 2014Assignee: Population Genetics Technologies Ltd.Inventors: James Casbon, Sydney Brenner, Robert Osborne, Conrad Lichtenstein, Andreas Claas
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Patent number: 8728766Abstract: Aspects of the present invention include methods and compositions for determining the number of individual polynucleotide molecules originating from the same genomic region of the same original sample that have been sequenced in a particular sequence analysis configuration or process. In these aspects of the invention, a degenerate base region (DBR) is attached to the starting polynucleotide molecules that are subsequently sequenced (e.g., after certain process steps are performed, e.g., amplification and/or enrichment). The number of different DBR sequences present in a sequencing run can be used to determine/estimate the number of different starting polynucleotides that have been sequenced. DBRs can be used to enhance numerous different nucleic acid sequence analysis applications, including allowing higher confidence allele call determinations in genotyping applications.Type: GrantFiled: March 29, 2013Date of Patent: May 20, 2014Assignee: Population Genetics Technologies Ltd.Inventors: James Casbon, Sydney Brenner, Robert Osborne, Conrad Lichtenstein, Andreas Claas