Patents by Inventor Derek L. Stemple
Derek L. Stemple 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: 8945845Abstract: This disclosure describes related novel methods for Recombinase-Polymerase Amplification (RPA) of a target DNA that exploit the properties of recombinase and related proteins, to invade double-stranded DNA with single stranded homologous DNA permitting sequence specific priming of DNA polymerase reactions. The disclosed methods have the advantage of not requiring thermocycling or thermophilic enzymes, thus offering easy and affordable implementation and portability relative to other amplification methods. Further disclosed are conditions to enable real-time monitoring of RPA reactions, methods to regulate RPA reactions using light and otherwise, methods to determine the nature of amplified species without a need for gel electrophoresis, methods to improve and optimize signal to noise ratios in RPA reactions, methods to optimize oligonucleotide primer function, methods to control carry-over contamination, and methods to employ sequence-specific third ‘specificity’ probes.Type: GrantFiled: March 27, 2013Date of Patent: February 3, 2015Assignee: Alere San Diego Inc.Inventors: Olaf Piepenburg, Colin H. Williams, Niall A. Armes, Derek L. Stemple
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Publication number: 20140234846Abstract: This disclosure describes related novel methods for Recombinase-Polymerase Amplification (RPA) of a target DNA that exploit the properties of recombinase and related proteins, to invade double-stranded DNA with single stranded homologous DNA permitting sequence specific priming of DNA polymerase reactions. The disclosed methods have the advantage of not requiring thermocycling or thermophilic enzymes. Further, the improved processivity of the disclosed methods may allow amplification of DNA up to hundreds of megabases in length.Type: ApplicationFiled: September 23, 2013Publication date: August 21, 2014Applicant: Alere San Diego, Inc.Inventors: Olaf Piepenburg, Colin H. Williams, Niall A. Armes, Derek L. Stemple
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Publication number: 20140141434Abstract: This disclosure describe three related novel methods for Recombinase-Polymerase Amplification (RPA) of a target DNA that exploit the properties of the bacterial RecA and related proteins, to invade double-stranded DNA with single stranded homologous DNA permitting sequence specific priming of DNA polymerase reactions. The disclosed methods has the advantage of not requiring thermocycling or thermophilic enzymes. Further, the improved processivity of the disclosed methods allow amplification of DNA up to hundreds of megabases in length.Type: ApplicationFiled: June 6, 2013Publication date: May 22, 2014Inventors: Niall A. Armes, Derek L. Stemple
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Publication number: 20140099674Abstract: This disclosure describes related novel methods for Recombinase-Polymerase Amplification (RPA) of a target DNA that exploit the properties of recombinase and related proteins, to invade double-stranded DNA with single stranded homologous DNA permitting sequence specific priming of DNA polymerase reactions. The disclosed methods have the advantage of not requiring thermocycling or thermophilic enzymes, thus offering easy and affordable implementation and portability relative to other amplification methods. Further disclosed are conditions to enable real-time monitoring of RPA reactions, methods to regulate RPA reactions using light and otherwise, methods to determine the nature of amplified species without a need for gel electrophoresis, methods to improve and optimize signal to noise ratios in RPA reactions, methods to optimize oligonucleotide primer function, methods to control carry-over contamination, and methods to employ sequence-specific third ‘specificity’ probes.Type: ApplicationFiled: March 27, 2013Publication date: April 10, 2014Applicant: Alere San Diego Inc.Inventors: Olaf Piepenburg, Colin H. Williams, Niall A. Armes, Derek L. Stemple
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Patent number: 8574846Abstract: This disclosure describes related novel methods for Recombinase-Polymerase Amplification (RPA) of a target DNA that exploit the properties of recombinase and related proteins, to invade double-stranded DNA with single stranded homologous DNA permitting sequence specific priming of DNA polymerase reactions. The disclosed methods have the advantage of not requiring thermocycling or thermophilic enzymes. Further, the improved processivity of the disclosed methods may allow amplification of DNA up to hundres of megabases in length.Type: GrantFiled: August 4, 2011Date of Patent: November 5, 2013Assignee: Alere San Diego, Inc.Inventors: Olaf Piepenburg, Colin H. Williams, Niall A. Armes, Derek L. Stemple
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Patent number: 8460875Abstract: This disclosure provides methods for Recombinase-Polymerase Amplification (RPA) of a target DNA. The methods exploit the properties of the bacterial RecA and related proteins to invade double-stranded DNA with single stranded homologous DNA permitting sequence specific priming of DNA polymerase reactions. The methods have the advantage of not requiring thermocycling or thermophilic enzymes. Further, the methods allow amplification of DNA up to hundreds of megabases in length.Type: GrantFiled: July 28, 2011Date of Patent: June 11, 2013Assignee: Alere San Diego, Inc.Inventors: Niall A. Armes, Derek L. Stemple
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Patent number: 8426134Abstract: This disclosure describes related novel methods for Recombinase-Polymerase Amplification (RPA) of a target DNA that exploit the properties of recombinase and related proteins, to invade double-stranded DNA with single stranded homologous DNA permitting sequence specific priming of DNA polymerase reactions. The disclosed methods have the advantage of not requiring thermocycling or thermophilic enzymes, thus offering easy and affordable implementation and portability relative to other amplification methods. Further disclosed are conditions to enable real-time monitoring of RPA reactions, methods to regulate RPA reactions using light and otherwise, methods to determine the nature of amplified species without a need for gel electrophoresis, methods to improve and optimize signal to noise ratios in RPA reactions, methods to optimize oligonucleotide primer function, methods to control carry-over contamination, and methods to employ sequence-specific third ‘specificity’ probes.Type: GrantFiled: August 18, 2011Date of Patent: April 23, 2013Assignee: Alere San Diego, Inc.Inventors: Olaf Piepenburg, Colin H. Williams, Niall A. Armes, Derek L. Stemple
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Patent number: 8299226Abstract: This disclosure provides novel reversibly terminated ribonucleotides which can be used as a reagent for DNA sequencing reactions. Methods of sequencing nucleic acids using the disclosed nucleotides are also provided.Type: GrantFiled: August 10, 2011Date of Patent: October 30, 2012Assignee: Alere San Diego, Inc.Inventors: Olaf Piepenburg, Derek L. Stemple, Niall A. Armes
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Publication number: 20120082990Abstract: This disclosure describes related novel methods for Recombinase-Polymerase Amplification (RPA) of a target DNA that exploit the properties of recombinase and related proteins, to invade double-stranded DNA with single stranded homologous DNA permitting sequence specific priming of DNA polymerase reactions. The disclosed methods have the advantage of not requiring thermocycling or thermophilic enzymes. Further, the improved processivity of the disclosed methods may allow amplification of DNA up to hundres of megabases in length.Type: ApplicationFiled: August 4, 2011Publication date: April 5, 2012Applicant: ALERE SAN DIEGO, INC.Inventors: Olaf Piepenburg, Colin H. Williams, Niall A. Armes, Derek L. Stemple
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Publication number: 20120058517Abstract: This disclosure describes related novel methods for Recombinase-Polymerase Amplification (RPA) of a target DNA that exploit the properties of recombinase and related proteins, to invade double-stranded DNA with single stranded homologous DNA permitting sequence specific priming of DNA polymerase reactions. The disclosed methods have the advantage of not requiring thermocycling or thermophilic enzymes, thus offering easy and affordable implementation and portability relative to other amplification methods. Further disclosed are conditions to enable real-time monitoring of RPA reactions, methods to regulate RPA reactions using light and otherwise, methods to determine the nature of amplified species without a need for gel electrophoresis, methods to improve and optimize signal to noise ratios in RPA reactions, methods to optimize oligonucleotide primer function, methods to control carry-over contamination, and methods to employ sequence-specific third ‘specificity’ probes.Type: ApplicationFiled: August 18, 2011Publication date: March 8, 2012Applicant: ALERE SAN DIEGO, INC.Inventors: Olaf Piepenburg, Colin H. Williams, Niall A. Armes, Derek L. Stemple
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Publication number: 20120040345Abstract: This disclosure provides novel reversibly terminated ribonucleotides which can be used as a reagent for DNA sequencing reactions. Methods of sequencing nucleic acids using the disclosed nucleotides are also provided.Type: ApplicationFiled: August 10, 2011Publication date: February 16, 2012Applicant: ALERE SAN DIEGO, INC.Inventors: Olaf Piepenburg, Derek L. Stemple, Niall A. Armes
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Publication number: 20120021462Abstract: This disclosure describe three related novel methods for Recombinase-Polymerase Amplification (RPA) of a target DNA that exploit the properties of the bacterial RecA and related proteins, to invade double-stranded DNA with single stranded homologous DNA permitting sequence specific priming of DNA polymerase reactions. The disclosed methods has the advantage of not requiring thermocycling or thermophilic enzymes. Further, the improved processivity of the disclosed methods allow amplification of DNA up to hundreds of megabases in length.Type: ApplicationFiled: July 28, 2011Publication date: January 26, 2012Inventors: Niall A. Armes, Derek L. Stemple
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Patent number: 8030000Abstract: This disclosure describes related novel methods for Recombinase-Polymerase Amplification (RPA) of a target DNA that exploit the properties of recombinase and related proteins, to invade double-stranded DNA with single stranded homologous DNA permitting sequence specific priming of DNA polymerase reactions. The disclosed methods have the advantage of not requiring thermocycling or thermophilic enzymes, thus offering easy and affordable implementation and portability relative to other amplification methods. Further RPA reactions using light and otherwise, methods to determine the nature of amplified species without a need for gel electrophoresis, methods to improve and optimize signal to noise ratios in RPA reactions, methods to optimize oligonucleotide primer function, methods to control carry-over contamination, and methods to employ sequence-specific third ‘specificity’ probes. Further described are novel properties and approaches for use of probes monitored by light in dynamic recombination environments.Type: GrantFiled: February 19, 2010Date of Patent: October 4, 2011Assignee: Alere San Diego, Inc.Inventors: Olaf Piepenburg, Colin H. Williams, Niall A. Armes, Derek L. Stemple
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Patent number: 8022194Abstract: This disclosure provides novel reversibly terminated ribonucleotides which can be used as a reagent for DNA sequencing reactions. Methods of sequencing nucleic acids using the disclosed nucleotides are also provided.Type: GrantFiled: June 21, 2010Date of Patent: September 20, 2011Assignee: Alere San Diego, Inc.Inventors: Olaf Piepenburg, Derek L. Stemple, Niall A. Armes
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Patent number: 8017339Abstract: This disclosure describes three related novel methods for Recombinase-Polymerase Amplification (RPA) of a target DNA that exploit the properties of recombinase and related proteins, to invade double-stranded DNA with single stranded homologous DNA permitting sequence specific priming of DNA polymerase reactions. The disclosed methods have the advantage of not requiring thermocycling or thermophilic enzymes. Further, the improved processivity of the disclosed methods may allow amplification of DNA up to hundreds of megabases in length.Type: GrantFiled: June 14, 2010Date of Patent: September 13, 2011Assignee: Alere San Diego, Inc.Inventors: Olaf Piepenburg, Colin H. Williams, Niall A. Armes, Derek L. Stemple
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Publication number: 20110065106Abstract: This disclosure describe three related novel methods for Recombinase-Polymerase Amplification (RPA) of a target DNA that exploit the properties of the bacterial RecA and related proteins, to invade double-stranded DNA with single stranded homologous DNA permitting sequence specific priming of DNA polymerase reactions. The disclosed methods has the advantage of not requiring thermocycling or thermophilic enzymes. Further, the improved processivity of the disclosed methods allow amplification of DNA up to hundreds of megabases in length.Type: ApplicationFiled: April 30, 2010Publication date: March 17, 2011Applicant: TwistDx, Inc.Inventors: Niall A. Armes, Derek L. Stemple
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Publication number: 20110059506Abstract: This disclosure describe three related novel methods for Recombinase-Polymerase Amplification (RPA) of a target DNA that exploit the properties of recombinase and related proteins, to invade double-stranded DNA with single stranded homologous DNA permitting sequence specific priming of DNA polymerase reactions. The disclosed methods have the advantage of not requiring thermocycling or thermophilic enzymes. Further, the improved processivity of the disclosed methods may allow amplification of DNA up to hundreds of megabases in length.Type: ApplicationFiled: June 14, 2010Publication date: March 10, 2011Applicant: Alere San Diego, Inc.Inventors: Olaf Piepenburg, Colin H. Williams, Niall A. Armes, Derek L. Stemple
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Publication number: 20110053154Abstract: This disclosure provides novel reversibly terminated ribonucleotides which can be used as a reagent for DNA sequencing reactions. Methods of sequencing nucleic acids using the disclosed nucleotides are also provided.Type: ApplicationFiled: June 21, 2010Publication date: March 3, 2011Applicant: TwistDx, Inc.Inventors: Olaf Piepenburg, Derek L. Stemple, Niall A. Armes
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Publication number: 20100311127Abstract: This disclosure describes related novel methods for Recombinase-Polymerase Amplification (RPA) of a target DNA that exploit the properties of recombinase and related proteins, to invade double-stranded DNA with single stranded homologous DNA permitting sequence specific priming of DNA polymerase reactions. The disclosed methods have the advantage of not requiring thermocycling or thermophilic enzymes, thus offering easy and affordable implementation and portability relative to other amplification methods. Further RPA reactions using light and otherwise, methods to determine the nature of amplified species without a need for gel electrophoresis, methods to improve and optimize signal to noise ratios in RPA reactions, methods to optimize oligonucleotide primer function, methods to control carry-over contamination, and methods to employ sequence-specific third ‘specificity’ probes. Further described are novel properties and approaches for use of probes monitored by light in dynamic recombination environments.Type: ApplicationFiled: February 19, 2010Publication date: December 9, 2010Applicant: TwistDix, Inc.Inventors: Olaf Piepenburg, Colin H. Williams, Niall A. Armes, Derek L. Stemple
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Patent number: 7763427Abstract: This disclosure describe three related novel methods for Recombinase-Polymerase Amplification (RPA) of a target DNA that exploit the properties of recombinase and related proteins, to invade double-stranded DNA with single stranded homologous DNA permitting sequence specific priming of DNA polymerase reactions. The disclosed methods have the advantage of not requiring thermocycling or thermophilic enzymes. Further, the improved processivity of the disclosed methods may allow amplification of DNA up to hundreds of megabases in length.Type: GrantFiled: May 7, 2008Date of Patent: July 27, 2010Assignee: TwistDx, Inc.Inventors: Olaf Piepenburg, Colin H. Williams, Niall A. Armes, Derek L. Stemple