Patents by Inventor Boris Breiner
Boris Breiner 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: 10690689Abstract: A microfluidic sequencing device in which a stream of microdroplets at least some of which contain a single nucleotide base are made to undergo reaction with a capture system to capture and detect an ordered sequence of single nucleotide bases generated by progressive pyrophosphorolysis.Type: GrantFiled: October 5, 2017Date of Patent: June 23, 2020Assignees: BASE4 INNOVATION LTD, UNITED KINGDOM RESEARCH AND INNOVATIONInventors: Cameron Alexander Frayling, Barnaby Balmforth, Bruno Flavio Nogueira de Sousa Soares, Thomas Henry Isaac, Boris Breiner, Alessandra Natale, Michele Amasio, Paul Dear
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Patent number: 10551399Abstract: A method for determining the sequence of nucleotide bases in a polynucleotide analyte is provided. It is characterised by the steps of (1) generating a stream of single nucleotide bases from the analyte by pyrophosphorolysis; (2) producing captured molecules by reacting each single nucleotide base with a capture system labelled with detectable elements in an undetectable state; (3) releasing the detectable elements from each captured molecule in a detectable state and (4) detecting the detectable elements so released and determining the sequence of nucleotide bases therefrom. The method can be used advantageously in sequencers involving the use of microdroplets.Type: GrantFiled: October 5, 2017Date of Patent: February 4, 2020Assignees: BASE4 INNOVATION LTD, UNITED KINGDOM RESEARCH AND INNOVATIONInventors: Cameron Alexander Frayling, Barnaby Balmforth, Bruno Flavio Nogueira de Sousa Soares, Thomas Henry Isaac, Boris Breiner, Alessandra Natale, Michele Amasio, Paul Dear
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Patent number: 10480024Abstract: A method for determining the sequence of nucleotide bases in a polynucleotide analyte is provided. It is characterised by the steps of (1) generating a stream of single nucleotide bases from the analyte; (2) producing captured molecules by reacting each single nucleotide base with a capture system; (3) amplifying at least part of the captured molecule to produce a plurality of amplicons characteristic of the single nucleotide base; (4) labelling the amplicons with a corresponding probe having a characteristic detectable element and (5) detecting a property characteristic of the detectable element.Type: GrantFiled: April 9, 2014Date of Patent: November 19, 2019Assignees: BASE4 INNOVATION LTD, UNITED KINGDOM RESEARCH AND INNOVATIONInventors: Cameron Alexander Frayling, Barnaby Balmforth, Bruno Flavio Nogueira de Sousa Soares, Thomas Henry Isaac, Boris Breiner, Alessandra Natale, Michele Amasio, Paul Dear
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Patent number: 10000802Abstract: Disclosed is a method for determining the sequence of nucleotide bases in a polynucleotide analyte characterised by the steps of: a. generating a stream of droplets at least some of which contain a single nucleotide and wherein the order of single nucleotides in the droplet stream corresponds to the sequence of nucleotides in the analyte; b. introducing into each droplet a plurality of biological probe types each type (i) comprising a different detectable element in an undetectable state and (ii) being adapted to capture a different complimentary single nucleotide from which the analyte is constituted; c. causing the single nucleotide contained in the droplet to bind to its complimentary probe to create a used probe; and d. causing the detectable element to be released from the used probe in a detectable state.Type: GrantFiled: April 9, 2015Date of Patent: June 19, 2018Assignee: BASE4 INNOVATION LTDInventors: Cameron Alexander Frayling, Barnaby Balmforth, Bruno Flavio Nogueira de Sousa Soares, Thomas Henry Isaac, Boris Breiner, Alessandra Natale, Michele Amasio
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Publication number: 20180044728Abstract: A method for determining the sequence of nucleotide bases in a polynucleotide analyte is provided. It is characterised by the steps of (1) generating a stream of single nucleotide bases from the analyte by pyrophosphorolysis; (2) producing captured molecules by reacting each single nucleotide base with a capture system labelled with detectable elements in an undetectable state; (3) releasing the detectable elements from each captured molecule in a detectable state and (4) detecting the detectable elements so released and determining the sequence of nucleotide bases therefrom. The method can be used advantageously in sequencers involving the use of microdroplets.Type: ApplicationFiled: October 5, 2017Publication date: February 15, 2018Applicants: BASE4 INNOVATION LTD, MEDICAL RESEARCH COUNCILInventors: Cameron Alexander FRAYLING, Barnaby BALMFORTH, Bruno Flavio Nogueira de Sousa SOARES, Thomas Henry ISAAC, Boris BREINER, Alessandra NATALE, Michele AMASIO, Paul DEAR
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Publication number: 20180044729Abstract: A method for determining the sequence of nucleotide bases in a polynucleotide analyte is provided. It is characterised by the steps of (1) generating a stream of single nucleotide bases from the analyte by pyrophosphorolysis; (2) producing captured molecules by reacting each single nucleotide base with a capture system labelled with detectable elements in an undetectable state; (3) releasing the detectable elements from each captured molecule in a detectable state and (4) detecting the detectable elements so released and determining the sequence of nucleotide bases therefrom. The method can be used advantageously in sequencers involving the use of microdroplets.Type: ApplicationFiled: October 5, 2017Publication date: February 15, 2018Applicants: BASE4 INNOVATION LTD, MEDICAL RESEARCH COUNCILInventors: Cameron Alexander FRAYLING, Barnaby BALMFORTH, Bruno Flavio Nogueira de Sousa SOARES, Thomas Henry ISAAC, Boris BREINER, Alessandra NATALE, Michele AMASIO, Paul DEAR
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Patent number: 9828631Abstract: A method for determining the sequence of nucleotide bases in a polynucleotide analyte is provided. It is characterized by the steps of (1) generating a stream of single nucleotide bases from the analyte by pyrophosphorolysis; (2) producing captured molecules by reacting each single nucleotide base with a capture system labelled with detectable elements in an undetectable state; (3) releasing the detectable elements from each captured molecule in a detectable state and (4) detecting the detectable elements so released and determining the sequence of nucleotide bases therefrom. The method can be used advantageously in sequencers involving the use of microdroplets.Type: GrantFiled: April 9, 2014Date of Patent: November 28, 2017Assignees: BASE4 INNOVATION LTD, MEDICAL RESEARCH COUNCILInventors: Cameron Alexander Frayling, Barnaby Balmforth, Bruno Flavio Nogueira de Sousa Soares, Thomas Henry Isaac, Boris Breiner, Alessandra Natale, Michele Amasio, Paul Dear
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Patent number: 9771615Abstract: Disclosed is a method for sequencing a polynucleotide analyte comprising: •a. generating a stream of droplets containing a single nucleotide wherein the order of single nucleotides in the droplet stream corresponds to the sequence of nucleotides in the analyte; •b. introducing into each droplet a plurality of biological probe types each type comprising a different label in an undetectable state and being adapted to capture a different single nucleotide; •c. causing the single nucleotide contained in the droplet to bind to its complementary probe and •d. causing the label to be released from the probe that has bound the nucleotide in a detectable state. The probe is a dumbbell shaped probe comprising fluorescent donor and quencher labels and a single nucleotide gap. After gap repair by a polymerase and a ligase, a restriction enzyme recognition site is cleaved by a restriction enzyme, followed by exonuclease digestion to release the labels.Type: GrantFiled: October 4, 2013Date of Patent: September 26, 2017Assignee: BASE4 INNOVATION LTDInventors: Cameron Alexander Frayling, Barnaby Balmforth, Bruno Flavio Nogueira de Sousa Soares, Thomas Henry Isaac, Boris Breiner, Alessandra Natale, Michele Amasio
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Publication number: 20160040223Abstract: A method for determining the sequence of nucleotide bases in a polynucleotide analyte is provided. It is characterised by the steps of (1) generating a stream of single nucleotide bases from the analyte; (2) producing captured molecules by reacting each single nucleotide base with a capture system; (3) amplifying at least part of the captured molecule to produce a plurality of amplicons characteristic of the single nucleotide base; (4) labelling the amplicons with a corresponding probe having a characteristic detectable element and (5) detecting a property characteristic of the detectable element.Type: ApplicationFiled: April 9, 2014Publication date: February 11, 2016Applicants: MEDICAL RESEARCH COUNCIL, BASE4 INNOVATION LTDInventors: Cameron Alexander FRAYLING, Barnaby BALMFORTH, Bruno Flavio Nogueira de Sousa SOARES, Thomas Henry ISAAC, Boris BREINER, Alessandra NATALE, Michele AMASIO, Paul DEAR
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Publication number: 20160040224Abstract: A method for determining the sequence of nucleotide bases in a polynucleotide analyte is provided. It is characterised by the steps of (1) generating a stream of single nucleotide bases from the analyte by pyrophosphorolysis; (2) producing captured molecules by reacting each single nucleotide base with a capture system labelled with detectable elements in an undetectable state; (3) releasing the detectable elements from each captured molecule in a detectable state and (4) detecting the detectable elements so released and determining the sequence of nucleotide bases therefrom. The method can be used advantageously in sequencers involving the use of microdroplets.Type: ApplicationFiled: April 9, 2014Publication date: February 11, 2016Applicants: MEDICAL RESEARCH COUNCIL, BASE4 INNOVATION LTDInventors: Cameron Alexander FRAYLING, Barnaby BALMFORTH, Bruno Flavio Nogueira de Sousa SOARES, Thomas Henry ISAAC, Boris BREINER, Alessandra NATALE, Michele AMASIO, Paul DEAR
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Publication number: 20150275293Abstract: Disclosed is a biological probe characterised in that it comprises a single-stranded nucleotide region the ends of which are attached to two different oligonucleotide regions wherein at least one of the oligonucleotide regions comprises detectable elements having a characteristic detection property and wherein the detectable elements are so arranged on the oligonucleotide region that the detectable property is less detectable than when the same number detectable elements are bound to a corresponding number of single nucleotides. The biological probe is especially useful for capturing single nucleotides or single-stranded nucleotides to create a used probe which can be degraded by means of a restriction enzyme and an exonuclease to generate single nucleotides carrying a detectable element in a form which can be detected.Type: ApplicationFiled: October 4, 2013Publication date: October 1, 2015Applicant: BASE4 INNOVATION LTDInventors: Cameron Alexander Frayling, Barnaby Balmforth, Bruno Flavio Nogueira de Sousa Soares, Thomas Henry Isaac, Boris Breiner, Alessandra Natale, Michele Amasio
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Publication number: 20150247192Abstract: Disclosed is a method for sequencing a polynucleotide analyte comprising:•a. generating a stream of droplets containing a single nucleotide wherein the order of single nucleotides in the droplet stream corresponds to the sequence of nucleotides in the analyte;•b. introducing into each droplet a plurality of biological probe types each type comprising a different label in an undetectable state and being adapted to capture a different single nucleotide;•c. causing the single nucleotide contained in the droplet to bind to its complementary probe and•d. causing the label to be released from the probe that has bound the nucleotide in a detectable state. The probe is a dumbbell shaped probe comprising fluorescent donor and quencher labels and a single nucleotide gap. After gap repair by a polymerase and a ligase, a restriction enzyme recognition site is cleaved by a restriction enzyme, followed by exonuclease digestion to release the labels.Type: ApplicationFiled: October 4, 2013Publication date: September 3, 2015Inventors: Cameron Alexander Frayling, Barnaby Balmforth, Bruno Flavio Nogueira de Sousa Soares, Thomas Henry Isaac, Boris Breiner, Alessandra Natale, Michele Amasio
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Publication number: 20150232925Abstract: Disclosed is a method for determining the sequence of nucleotide bases in a polynucleotide analyte characterised by the steps of: a. generating a stream of droplets at least some of which contain a single nucleotide and wherein the order of single nucleotides in the droplet stream corresponds to the sequence of nucleotides in the analyte; b. introducing into each droplet a plurality of biological probe types each type (i) comprising a different detectable element in an undetectable state and (ii) being adapted to capture a different complimentary single nucleotide from which the analyte is constituted; c. causing the single nucleotide contained in the droplet to bind to its complimentary probe to create a used probe and d. causing the detectable element to be released from the used probe in a detectable state.Type: ApplicationFiled: April 9, 2015Publication date: August 20, 2015Inventors: Cameron Alexander FRAYLING, Barnaby BALMFORTH, Bruno Flavio Nogueira de Sousa SOARES, Thomas Henry ISAAC, Boris BREINER, Alessandra NATALE, Michele AMASIO
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Publication number: 20150056618Abstract: A method for mapping the number and location of restriction enzymes sites for a given restriction enzyme in a target nucleic acid comprises the steps of (1) translocating a target nucleic acid having detectable elements characteristic of the presence of the restriction enzyme sites therein through an analysing device comprising a nanopore and a detection window and (2) causing the detectable elements to be detected as they pass though the detection window. Typically the detectable elements are formed by attaching to the restriction enzyme sites a restriction enzyme to which one or more marker moieties have been added. The data or signal obtained from the detection is suitably in the form of a distribution profile of the detectable elements, and therefore the restriction enzyme sites along the length of the target nucleic acid and can be used to create a reference set of like distribution profiles against which new distributions can be compared.Type: ApplicationFiled: March 15, 2013Publication date: February 26, 2015Applicant: BASE 4 INNOVATION LTD.Inventors: Cameron Alexander Frayling, Boris Breiner, Michele Amasio, Alessandra Natale
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Patent number: 8334403Abstract: Compounds and methods for double-stranded DNA cleavage of light-activated lysine conjugates are enhanced at the slightly acidic pH suitable for selective targeting of cancer cells by the presence of two amino groups of different basicities. The first amino group plays an auxiliary role enhancing solubility and affinity to DNA whereas the second amino group which is positioned next to the light-activated DNA-cleaver undergoes protonation at the desired pH threshold. Protonation results in two synergetic effects which account for the increased DNA-cleaving ability at the lower pH: tighter binding to DNA at the lower pH; and the unproductive pathway which quenches the excited state of the photocleaver through intramolecular electron transfer is eliminated once the donor amino group next to the chromophore is protonated. The utility of these molecules for phototherapy of cancer is confirmed by the drastic increase in toxicity of five conjugates against cancer cell lines upon photoactivation.Type: GrantFiled: December 17, 2009Date of Patent: December 18, 2012Assignee: Florida State University Research Foundation, Inc.Inventors: Igor Alabugin, Serguei Kovalenko, Wang Yong Yang, Kerry Gilmore, Boris Breiner
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Patent number: 8242307Abstract: A process of forming a double strand cleavage in DNA includes providing a reaction mixture containing double stranded DNA having a break in a first strand defining a target site in a second strand. The method continues by adding to the reaction mixture a photoreactive lysine conjugate selected from a lysine-enediyne conjugate, a lysine-acetylene conjugate or a combination thereof, for a time sufficient for the lysine conjugate to bind to the DNA adjacent the target site. The reaction mixture is then irradiated with electromagnetic radiation sufficient to photoactivate the lysine conjugate to cleave the second strand adjacent the target site.Type: GrantFiled: December 10, 2009Date of Patent: August 14, 2012Assignee: Florida State University Research Foundation, Inc.Inventors: Igor V. Alabugin, Boris Breiner, Joerg C. Schlatterer, Serguei V. Kovalenko, Nancy L. Greenbaum
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Patent number: 7695912Abstract: A process of forming a double strand cleavage in DNA includes providing a reaction mixture containing double stranded DNA having a break in a first strand defining a target site in a second strand. The method continues by adding to the reaction mixture a photoreactive lysine conjugate selected from a lysine-enediyne conjugate, a lysine-acetylene conjugate or a combination thereof, for a time sufficient for the lysine conjugate to bind to the DNA adjacent the target site. The reaction mixture is then irradiated with electromagnetic radiation sufficient to photoactivate the lysine conjugate to cleave the second strand adjacent the target site.Type: GrantFiled: December 22, 2006Date of Patent: April 13, 2010Assignee: Florida State University Research Foundation, Inc.Inventors: Igor V. Alabugin, Boris Breiner, Joerg C. Schlatterer, Serguei V. Kovalenko, Nancy L. Greenbaum