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公开(公告)号：WO2012065043A9
公开(公告)日：2012-12-20
申请号：PCT/US2011060338
申请日：2011-11-11
Applicant: PACIFIC BIOSCIENCES CALIFORNIA , FLUSBERG BENJAMIN , KORLACH JONAS , WEGENER JEFFREY , CLARK TYSON A , VILFAN IGOR , KISLYUK ANDREY , TURNER STEPHEN , SORENSON JON , TRAVERS KEVIN , HEINER CHERYL , TOMANEY AUSTIN B , MARKS PATRICK , LEE JESSICA , JIA LEI , WEBSTER DALE , LYLE JOHN , HANES JEREMIAH , PUGLISI JOSEPH
Inventor： FLUSBERG BENJAMIN , KORLACH JONAS , WEGENER JEFFREY , CLARK TYSON A , VILFAN IGOR , KISLYUK ANDREY , TURNER STEPHEN , SORENSON JON , TRAVERS KEVIN , HEINER CHERYL , TOMANEY AUSTIN B , MARKS PATRICK , LEE JESSICA , JIA LEI , WEBSTER DALE , LYLE JOHN , HANES JEREMIAH , PUGLISI JOSEPH
CPC classification number: C12Q1/6869 , C12Q1/6837 , C12Q1/6858 , C12Q1/6874 , C12Q1/689 , C12Q2600/154 , C12Q2537/164 , C12Q2527/113 , C12Q2521/101 , C12Q2525/307 , C12Q2525/117
Abstract: Methods, compositions, and systems are provided for characterization of modified nucleic acids. In certain preferred embodiments, single molecule sequencing methods are provided for identification of modified nucleotides within nucleic acid sequences. Modifications detectable by the methods provided herein include chemically modified bases, enzymatically modified bases, abasic sites, non-natural bases, secondary structures, and agents bound to a template nucleic acid.
Abstract translation: 提供了用于表征修饰的核酸的方法，组合物和系统。 在某些优选的实施方案中，提供单分子测序方法用于鉴定核酸序列内的修饰的核苷酸。 通过本文提供的方法可检测的修饰包括化学修饰的碱基，酶修饰的碱基，无碱基位点，非天然碱基，二级结构和与模板核酸结合的试剂。
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公开(公告)号：WO2012065043A3
公开(公告)日：2012-08-16
申请号：PCT/US2011060338
申请日：2011-11-11
Applicant: PACIFIC BIOSCIENCES CALIFORNIA , FLUSBERG BENJAMIN , KORLACH JONAS , WEGENER JEFFREY , CLARK TYSON A , VILFAN IGOR , KISLYUK ANDREY , TURNER STEPHEN , SORENSON JON , TRAVERS KEVIN , HEINER CHERYL , TOMANEY AUSTIN B , MARKS PATRICK , LEE JESSICA , JIA LEI , WEBSTER DALE , LYLE JOHN , HANES JEREMIAH , PUGLISI JOSEPH
Inventor： FLUSBERG BENJAMIN , KORLACH JONAS , WEGENER JEFFREY , CLARK TYSON A , VILFAN IGOR , KISLYUK ANDREY , TURNER STEPHEN , SORENSON JON , TRAVERS KEVIN , HEINER CHERYL , TOMANEY AUSTIN B , MARKS PATRICK , LEE JESSICA , JIA LEI , WEBSTER DALE , LYLE JOHN , HANES JEREMIAH , PUGLISI JOSEPH
CPC classification number: C12Q1/6869 , C12Q1/6837 , C12Q1/6858 , C12Q1/6874 , C12Q1/689 , C12Q2600/154 , C12Q2537/164 , C12Q2527/113 , C12Q2521/101 , C12Q2525/307 , C12Q2525/117
Abstract: Methods, compositions, and systems are provided for characterization of modified nucleic acids. In certain preferred embodiments, single molecule sequencing methods are provided for identification of modified nucleotides within nucleic acid sequences. Modifications detectable by the methods provided herein include chemically modified bases, enzymatically modified bases, abasic sites, non-natural bases, secondary structures, and agents bound to a template nucleic acid.
Abstract translation: 提供了方法，组合物和系统用于表征修饰的核酸。 在某些优选实施方案中，提供单分子测序方法用于鉴定核酸序列内的修饰的核苷酸。 通过本文提供的方法可检测的修饰物包括化学修饰的碱基，酶修饰的碱基，脱碱基位点，非天然碱基，二级结构和与模板核酸结合的试剂。
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公开(公告)号：WO2010129019A2
公开(公告)日：2010-11-11
申请号：PCT/US2010/001236
申请日：2010-04-26
Applicant: PACIFIC BIOSCIENCES OF CALIFORNIA, INC. , KORLACH, Jonas , TURNER, Stephen , SCHADT, Eric
Inventor： KORLACH, Jonas , TURNER, Stephen , SCHADT, Eric
CPC classification number: C12Q1/6869 , C12Q1/702 , C12Q2565/518 , C12Q2547/101
Abstract: The present invention is generally directed to compositions, methods, and systems for performing single-molecule, real-time analysis of a variety of different biological reactions. The ability to analyze such reactions provides an opportunity to study those reactions as well as to potentially identify factors and/or approaches for impacting such reactions, e.g., to either enhance or inhibit such reactions. In certain preferred embodiments, RNA templates are used in single-molecule real-time sequencing reactions.
Abstract translation: 本发明一般涉及用于进行各种不同生物反应的单分子实时分析的组合物，方法和系统。 分析这些反应的能力提供了研究这些反应以及潜在鉴定影响这种反应的因素和/或方法的机会，例如增强或抑制这种反应。 在某些优选实施方案中，RNA模板用于单分子实时测序反应。
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公开(公告)号：WO2010033193A2
公开(公告)日：2010-03-25
申请号：PCT/US2009/005168
申请日：2009-09-15
Applicant: PACIFIC BIOSCIENCES OF CALIFORNIA, INC. , ZHONG, Cheng, Frank , LUNDQUIST, Paul , FOQUET, Mathieu , KORLACH, Jonas , BAYANDORIAN, Hovig
Inventor： ZHONG, Cheng, Frank , LUNDQUIST, Paul , FOQUET, Mathieu , KORLACH, Jonas , BAYANDORIAN, Hovig
IPC: G01N21/00 , G01N33/483 , G01B9/02
CPC classification number: C12Q1/6874 , C12Q1/68 , C12Q1/6825 , G01N21/6428 , G01N21/648 , G01N21/7703 , G01N33/54373 , G01N2021/6463 , G01N2201/06113 , G01N2201/0638 , G01N2201/08
Abstract: This invention provides substrates for use in various applications, including single-molecule analytical reactions. Methods for propagating optical energy within a substrate are provided. Devices comprising waveguide substrates and dielectric omnidirectional reflectors are provided. Waveguide substrates with improved uniformity of optical energy intensity across one or more waveguides and enhanced waveguide illumination efficiency within an analytic detection region of the arrays are provided.
Abstract translation: 本发明提供用于各种应用（包括单分子分析反应）的底物。 提供了用于在衬底内传播光能的方法。 提供了包括波导衬底和电介质全向反射器的装置。 提供了在一个或多个波导上具有改善的光能强度均匀性的波导衬底以及阵列的分析检测区域内增强的波导照射效率。
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5.发明申请
公开(公告)号：WO2010027484A2
公开(公告)日：2010-03-11
申请号：PCT/US2009004993
申请日：2009-09-04
Applicant: PACIFIC BIOSCIENCES CALIFORNIA , PATEL PRANAV , KORLACH JONAS , BIBILLO ARKADIUSZ , BJORNSON KEITH , HANES JEREMIAH
Inventor： PATEL PRANAV , KORLACH JONAS , BIBILLO ARKADIUSZ , BJORNSON KEITH , HANES JEREMIAH
CPC classification number: C12Q1/6869 , C12N9/1252 , C12Q2527/113 , C12Q2521/101 , C12Q2527/137 , C12Q2537/161 , C12Q2525/101 , C12Q2563/107
Abstract: Provided are methods for enhanced sequencing of nucleic acid templates. Also provided are reaction conditions that increase branching fractions during polymerization reactions. Also provided are compositions comprising modified recombinant polymerases that exhibit branching fractions that are higher than the branching fractions of the polymerases from which they were derived. Provided are compositions comprising modified recombinant polymerases that exhibit delayed translocation relative to the polymerases from which they were derived. Also provided are compositions comprising modified recombinant polymerases that exhibit increased nucleotide or nucleotide analog residence time at an active site of the polymerase. Provided are methods for generating polymerases with the aforementioned phenotypes and methods of using such polymerases to sequence a DNA template or make a DNA. Also provided are methods and nucleic acid sequencing systems for determining which labeled nucleotide is incorporated at a site during a template-dependent polymerization reaction.
Abstract translation: 提供了用于增强核酸模板测序的方法。 还提供了在聚合反应期间增加支化馏分的反应条件。 还提供了包含改性重组聚合酶的组合物，其表现出高于其衍生的聚合酶的支化部分的支化部分。 提供了包含修饰的重组聚合酶的组合物，其相对于衍生自其的聚合酶表现出延迟的移位。 还提供了包含修饰的重组聚合酶的组合物，其在聚合酶的活性位点表现出增加的核苷酸或核苷酸类似物停留时间。 提供了使用上述表型产生聚合酶的方法和使用这种聚合酶来顺序DNA模板或制备DNA的方法。 还提供了用于在模板依赖性聚合反应期间确定哪个标记的核苷酸被掺入位点的方法和核酸测序系统。
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Patent Agency Ranking
公开(公告)号：WO2009145828A3
公开(公告)日：2009-12-03
申请号：PCT/US2009/002003
申请日：2009-03-30
Applicant: PACIFIC BIOSCIENCES OF CALIFORNIA, INC. , BJORNSON, Keith , LEE, Harold , KORLACH, Jonas , TURNER, Stephen , BIBILLO, Arek , CHRISTIANS, Fred , EMIG, Robin , HE, Molly , PARK, Insil , JIA, Lei , FEDOROV, Andrei , LYLE, John
Inventor： BJORNSON, Keith , LEE, Harold , KORLACH, Jonas , TURNER, Stephen , BIBILLO, Arek , CHRISTIANS, Fred , EMIG, Robin , HE, Molly , PARK, Insil , JIA, Lei , FEDOROV, Andrei , LYLE, John
Abstract: Compositions, kits, methods and systems for nucleotide sequencing comprising producing polymerase reactions that exhibit two kinetically observable steps within an observable phase of the polymerase reaction. Two slow step systems can be produced, for example, by selecting the appropriate polymerase enzyme, polymerase reaction conditions including cofactors, and polymerase reaction substrates including the primed template and nucleotides.
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公开(公告)号：WO2009145818A1
公开(公告)日：2009-12-03
申请号：PCT/US2009/001970
申请日：2009-03-30
Applicant: PACIFIC BIOSCIENCES OF CALIFORNIA, INC , EID, John , TURNER, Stephen , DALAL, Ravi , FLUSBERG, Benjamin , KORLACH, Jonas , LIN, Steven , FEHR, Adrian , CHRISTIANS, Fred , EMIG, Robin
Inventor： EID, John , TURNER, Stephen , DALAL, Ravi , FLUSBERG, Benjamin , KORLACH, Jonas , LIN, Steven , FEHR, Adrian , CHRISTIANS, Fred , EMIG, Robin
CPC classification number: B01J19/0046 , B01J2219/00596 , C12N2310/50 , C12N2310/51 , C12Q1/6869 , C12Q2535/122 , C40B40/06 , G01N33/54313 , G01N33/54366
Abstract: Methods, compositions and arrays for non-random loading of single analyte molecules into array structures are provided.
Abstract translation: 提供了将单一分析物分子非随机加载到阵列结构中的方法，组合物和阵列。
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公开(公告)号：WO2010144150A3
公开(公告)日：2011-07-14
申请号：PCT/US2010001690
申请日：2010-06-11
Applicant: PACIFIC BIOSCIENCES CALIFORNIA , KORLACH JONAS , TURNER STEPHEN , FLUSBERG BENJAMIN , CHAISSON MARK , SCHADT ERIC , WEGENER JEFF
Inventor： KORLACH JONAS , TURNER STEPHEN , FLUSBERG BENJAMIN , SCHADT ERIC , WEGENER JEFF
CPC classification number: G01N33/68 , C12Q1/6825 , C12Q1/6827 , C12Q1/6869 , G01N33/542 , G01N33/54306 , G01N33/54373 , G01N33/582 , G01N33/6875 , G01N2333/705 , G01N2458/10 , C12Q2563/107 , C12Q2522/101 , C12Q2561/113 , C12Q2537/164 , C12Q2523/125
Abstract: The present invention is generally directed to compositions, methods, and systems for performing single-molecule, real-time analysis of a variety of different biological reactions, and for determining various characteristics of the different biological reactions. The ability to analyze such reactions provides an opportunity to study those reactions as well as to potentially identify factors and/or approaches for impacting such reactions, e.g., to stimulate, enhance, or inhibit such reactions.
Abstract translation: 本发明一般涉及用于进行各种不同生物反应的单分子实时分析以及用于确定不同生物反应的各种特征的组合物，方法和系统。 分析这些反应的能力提供研究这些反应的机会，并且潜在地鉴定影响这些反应的因素和/或方法，例如刺激，增强或抑制这些反应。
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公开(公告)号：WO2010129019A3
公开(公告)日：2011-03-31
申请号：PCT/US2010001236
申请日：2010-04-26
Applicant: PACIFIC BIOSCIENCES CALIFORNIA , KORLACH JONAS , TURNER STEPHEN , SCHADT ERIC
Inventor： KORLACH JONAS , TURNER STEPHEN , SCHADT ERIC
CPC classification number: C12Q1/6869 , C12Q1/702 , C12Q2565/518 , C12Q2547/101
Abstract: The present invention is generally directed to compositions, methods, and systems for performing single-molecule, real-time analysis of a variety of different biological reactions. The ability to analyze such reactions provides an opportunity to study those reactions as well as to potentially identify factors and/or approaches for impacting such reactions, e.g., to either enhance or inhibit such reactions. In certain preferred embodiments, RNA templates are used in single-molecule real-time sequencing reactions.
Abstract translation: 本发明一般涉及用于进行各种不同生物反应的单分子实时分析的组合物，方法和系统。 分析这些反应的能力提供了研究这些反应以及潜在鉴定影响这些反应的因素和/或方法的机会，例如增强或抑制这种反应。 在某些优选实施方案中，RNA模板用于单分子实时测序反应。
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公开(公告)号：WO2010117470A3
公开(公告)日：2011-03-31
申请号：PCT/US2010001072
申请日：2010-04-09
Applicant: PACIFIC BIOSCIENCES CALIFORNIA , TURNER STEPHEN , FLUSBERG BENJAMIN , FOQUET MATHIEU , CALLEBAUT HANS , SEBRA ROBERT , CHAUDHURI BIDHAN , SORENSON JON , BJORNSON KEITH , FEHR ADRIAN , KORLACH JONAS , EMIG ROBIN
Inventor： TURNER STEPHEN , FLUSBERG BENJAMIN , FOQUET MATHIEU , CALLEBAUT HANS , SEBRA ROBERT , CHAUDHURI BIDHAN , SORENSON JON , BJORNSON KEITH , FEHR ADRIAN , KORLACH JONAS , EMIG ROBIN
CPC classification number: G01N33/48721 , B82Y5/00 , B82Y15/00 , C12Q1/6869 , C12Q1/6874 , C12Q2565/631 , G01N27/447 , G01N27/44791 , C12Q2563/116 , C12Q2527/113
Abstract: The invention relates to devices and methods for nanopore sequencing. The invention includes arrays of nanopores having incorporated electronic circuits, for example, in CMOS. In some cases, the arrays of nanopores comprise resistive openings for isolating the electronic signals for improved sequencing. Methods for controlling translocation of through the nanopore are disclosed.
Abstract translation: 本发明涉及纳米孔测序的装置和方法。 本发明包括纳入电子电路的纳米孔阵列，例如在CMOS中。 在一些情况下，纳米孔阵列包括用于隔离电子信号的电阻开口以改善测序。 公开了通过纳米孔控制易位的方法。
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