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公开(公告)号：US09175338B2
公开(公告)日：2015-11-03
申请号：US12945767
申请日：2010-11-12
Applicant: Benjamin Flusberg , Jonas Korlach , Jeffrey Wegener , Tyson A. Clark , Igor Vilfan , Andrey Kislyuk , Stephen Turner , Jon Sorenson , Kevin Travers , Cheryl Heiner , Austin B. Tomaney , Patrick Marks , Jessica Lee , Lei Jia , Dale Webster , John Lyle , Jeremiah Hanes , Joseph Puglisi
Inventor： Benjamin Flusberg , Jonas Korlach , Jeffrey Wegener , Tyson A. Clark , Igor Vilfan , Andrey Kislyuk , Stephen Turner , Jon Sorenson , Kevin Travers , Cheryl Heiner , Austin B. Tomaney , Patrick Marks , Jessica Lee , Lei Jia , Dale Webster , John Lyle , Jeremiah Hanes , Joseph Puglisi
IPC: C12Q1/68
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：US20120115736A1
公开(公告)日：2012-05-10
申请号：US13271889
申请日：2011-10-12
Applicant: Keith Bjornson , Arek Bibillo , Fred Christians , Kevin Travers , Robin Emig , Stephen Turner
Inventor： Keith Bjornson , Arek Bibillo , Fred Christians , Kevin Travers , Robin Emig , Stephen Turner
CPC classification number: C12Q1/6869 , C07K14/00 , C12Q1/6874 , C12Q2531/125 , C12Q2521/101
Abstract: Provided are methods for sequencing a nucleic acid with a sequencing enzyme, e.g., a polymerase or exonuclease. The sequencing enzyme can optionally be exchanged with a second sequencing enzyme, which continues the sequencing of the nucleic acid. In certain embodiments, a template is fixed to a surface through a template localizing moiety. The template localizing moiety can optionally anneal with the nucleic acid and/or associate with the sequencing enzyme. Also provided are compositions comprising a nucleic acid and a first sequencing enzyme, which can sequence the nucleic acid and optionally exchange with a second sequencing enzyme present in the composition. Compositions in which a template localizing moiety is immobilized on a surface are provided. Also provided are methods for using data from analytical reactions wherein two different enzymes are employed, e.g., at a same or different reaction regions.
Abstract translation: 提供了用测序酶（例如聚合酶或外切核酸酶）对核酸进行测序的方法。 测序酶可以任选地与第二个测序酶交换，其继续测序核酸。 在某些实施方案中，通过模板定位部分将模板固定在表面上。 模板定位部分可任选地与核酸退火和/或与测序酶缔合。 还提供了包含核酸和第一测序酶的组合物，其可以对核酸进行序列化并且任选与组合物中存在的第二测序酶交换。 提供其中将模板定位部分固定在表面上的组合物。 还提供了使用来自分析反应的数据的方法，其中使用两种不同的酶，例如在相同或不同的反应区域。
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公开(公告)号：US20120003699A1
公开(公告)日：2012-01-05
申请号：US13171766
申请日：2011-06-29
Applicant: Cheryl Heiner , Stephen Turner , Kevin Travers
Inventor： Cheryl Heiner , Stephen Turner , Kevin Travers
CPC classification number: C12Q1/6806 , C12Q1/6869 , C12Q2563/179 , C12Q2563/155 , C12Q2525/307
Abstract: Methods of separating tagged nucleic acid fragments from populations of fragments are provided. The fragments are produced from a population of tagged nucleic acids. In some cases, the population of tagged nucleic acids comprises a population of clonal nucleic acids.
Abstract translation: 提供了从片段群体分离标记的核酸片段的方法。 片段由标记核酸群体产生。 在一些情况下，标记核酸的群体包括克隆核酸群体。
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公开(公告)号：US20100221716A1
公开(公告)日：2010-09-02
申请号：US12635618
申请日：2009-12-10
Applicant: Benjamin Flusberg , Stephen Turner , Jessica Lee , Lei Jia , Jonas Korlach , Jon Sorenson , Dale Webster , John Lyle , Kevin Travers , Jeremiah Hanes
Inventor： Benjamin Flusberg , Stephen Turner , Jessica Lee , Lei Jia , Jonas Korlach , Jon Sorenson , Dale Webster , John Lyle , Kevin Travers , Jeremiah Hanes
IPC: C12Q1/68
CPC classification number: C12Q1/6869 , C12Q1/6837 , C12Q1/6858 , C12Q2561/113 , 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：US20100075328A1
公开(公告)日：2010-03-25
申请号：US12562690
申请日：2009-09-18
Applicant: KEITH BJORNSON , Arek Bibillo , Fred Christians , Kevin Travers , Robin Emig
Inventor： KEITH BJORNSON , Arek Bibillo , Fred Christians , Kevin Travers , Robin Emig
IPC: C12Q1/68
CPC classification number: C12Q1/6874 , C12Q2531/125
Abstract: Provided are methods for sequencing a nucleic acid that include fixing a template to a surface through a template localizing moiety and sequencing the nucleic acid with a sequencing enzyme, e.g. a polymerase or exonuclease. The sequencing enzyme can optionally be exchanged with a second sequencing enzyme, which continues the sequencing of the nucleic acid. The template localizing moiety can optionally anneal with the nucleic acid and/or associate with the sequencing enzyme. Also provided are compositions comprising a nucleic acid fixed to a surface via a template localizing moiety, and a first sequencing enzyme, which can sequence the nucleic acid and optionally exchange with a second sequencing enzyme present in the composition. Compositions in which a template localizing moiety is immobilized on a surface are provided. Compositions for sequencing reactions are provided. Also provided are sequencing systems comprising reaction regions in which or near which template localizing moieties are immobilized.
Abstract translation: 提供了用于对核酸进行测序的方法，其包括通过模板定位部分将模板固定到表面，并用测序酶（例如）测序核酸。 聚合酶或外切核酸酶。 测序酶可以任选地与第二个测序酶交换，其继续测序核酸。 模板定位部分可任选地与核酸退火和/或与测序酶缔合。 还提供了包含通过模板定位部分固定在表面上的核酸的组合物和可以使序列核酸并任选地与组合物中存在的第二测序酶交换的第一测序酶。 提供其中将模板定位部分固定在表面上的组合物。 提供了测序反应的组合物。 还提供了包含反应区的测序系统，其中固定有定位部分的模板定位部分。
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Patent Agency Ranking
公开(公告)号：US20090105094A1
公开(公告)日：2009-04-23
申请号：US12286119
申请日：2008-09-26
Applicant: Cheryl Heiner , Stephen Turner , Kevin Travers
Inventor： Cheryl Heiner , Stephen Turner , Kevin Travers
IPC: C40B50/06
CPC classification number: C12Q1/6806 , C12Q1/6869 , C12Q2563/179 , C12Q2563/155 , C12Q2525/307
Abstract: Methods of preparing nucleic acid templates and providing the nucleic acid templates to low copy number reaction volumes are provided. Related compositions of nucleic acid templates are also provided.
Abstract translation: 提供了制备核酸模板并将核酸模板提供给低拷贝数反应体积的方法。 还提供了核酸模板的相关组合物。
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公开(公告)号：US08921046B2
公开(公告)日：2014-12-30
申请号：US13271889
申请日：2011-10-12
Applicant: Keith Bjornson , Arek Bibillo , Fred Christians , Kevin Travers , Robin Emig , Stephen Turner
Inventor： Keith Bjornson , Arek Bibillo , Fred Christians , Kevin Travers , Robin Emig , Stephen Turner
CPC classification number: C12Q1/6869 , C07K14/00 , C12Q1/6874 , C12Q2531/125 , C12Q2521/101
Abstract: Provided are methods for sequencing a nucleic acid with a sequencing enzyme, e.g., a polymerase or exonuclease. The sequencing enzyme can optionally be exchanged with a second sequencing enzyme, which continues the sequencing of the nucleic acid. In certain embodiments, a template is fixed to a surface through a template localizing moiety. The template localizing moiety can optionally anneal with the nucleic acid and/or associate with the sequencing enzyme. Also provided are compositions comprising a nucleic acid and a first sequencing enzyme, which can sequence the nucleic acid and optionally exchange with a second sequencing enzyme present in the composition. Compositions in which a template localizing moiety is immobilized on a surface are provided. Also provided are methods for using data from analytical reactions wherein two different enzymes are employed, e.g., at a same or different reaction regions.
Abstract translation: 提供了用测序酶（例如聚合酶或外切核酸酶）对核酸进行测序的方法。 测序酶可以任选地与第二个测序酶交换，其继续测序核酸。 在某些实施方案中，通过模板定位部分将模板固定在表面上。 模板定位部分可任选地与核酸退火和/或与测序酶缔合。 还提供了包含核酸和第一测序酶的组合物，其可以对核酸进行序列化并且任选与组合物中存在的第二测序酶交换。 提供其中将模板定位部分固定在表面上的组合物。 还提供了使用来自分析反应的数据的方法，其中使用两种不同的酶，例如在相同或不同的反应区域。
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公开(公告)号：US08481264B2
公开(公告)日：2013-07-09
申请号：US12562690
申请日：2009-09-18
Applicant: Keith Bjornson , Arek Bibillo , Fred Christians , Kevin Travers , Robin Emig
Inventor： Keith Bjornson , Arek Bibillo , Fred Christians , Kevin Travers , Robin Emig
CPC classification number: C12Q1/6874 , C12Q2531/125
Abstract: Provided are methods for sequencing a nucleic acid that include fixing a template to a surface through a template localizing moiety and sequencing the nucleic acid with a sequencing enzyme, e.g. a polymerase or exonuclease. The sequencing enzyme can optionally be exchanged with a second sequencing enzyme, which continues the sequencing of the nucleic acid. The template localizing moiety can optionally anneal with the nucleic acid and/or associate with the sequencing enzyme. Also provided are compositions comprising a nucleic acid fixed to a surface via a template localizing moiety, and a first sequencing enzyme, which can sequence the nucleic acid and optionally exchange with a second sequencing enzyme present in the composition. Compositions in which a template localizing moiety is immobilized on a surface are provided. Compositions for sequencing reactions are provided. Also provided are sequencing systems comprising reaction regions in which or near which template localizing moieties are immobilized.
Abstract translation: 提供了用于对核酸进行测序的方法，其包括通过模板定位部分将模板固定到表面，并用测序酶（例如）测序核酸。 聚合酶或外切核酸酶。 测序酶可以任选地与第二个测序酶交换，其继续测序核酸。 模板定位部分可任选地与核酸退火和/或与测序酶缔合。 还提供了包含通过模板定位部分固定在表面上的核酸的组合物和可以使序列核酸并任选地与组合物中存在的第二测序酶交换的第一测序酶。 提供其中将模板定位部分固定在表面上的组合物。 提供了测序反应的组合物。 还提供了包含反应区的测序系统，其中固定有定位部分的模板定位部分。
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公开(公告)号：US20120309650A1
公开(公告)日：2012-12-06
申请号：US13494729
申请日：2012-06-12
Applicant: Pranav Patel , Keith Bjornson , Kevin Travers , Cheryl Heiner
Inventor： Pranav Patel , Keith Bjornson , Kevin Travers , Cheryl Heiner
Abstract: Provided are methods and compositions for the production of linear single-stranded nucleic acids, which can be used as templates in high-throughput sequencing systems. Also provided are methods and compositions for the production of closed single-stranded nucleic acid loops, which can be used as templates in high-throughput sequencing systems.
Abstract translation: 提供用于生产线性单链核酸的方法和组合物，其可以在高通量测序系统中用作模板。 还提供了用于生产封闭的单链核酸环的方法和组合物，其可以在高通量测序系统中用作模板。
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公开(公告)号：US08153375B2
公开(公告)日：2012-04-10
申请号：US12413258
申请日：2009-03-27
Applicant: Kevin Travers , Geoff Otto , Stephen Turner , Cheryl Heiner , Congcong Ma
Inventor： Kevin Travers , Geoff Otto , Stephen Turner , Cheryl Heiner , Congcong Ma
CPC classification number: G06F19/22 , C12Q1/6806 , C12Q1/6855 , C12Q1/6869 , C12Q1/689 , C12Q2525/307 , C12Q2525/301 , C12Q2525/155 , C12Q2531/125 , C12Q2535/122
Abstract: Compositions and methods for nucleic acid sequencing include template constructs that comprise double stranded portions in a partially or completely contiguous constructs, to provide for redundant sequence determination through one or both of sequencing sense and antisense strands, and iteratively sequencing the entire construct multiple times. Additional sequence components are also optionally included within such template constructs. Methods are also provided for the use and preparation of these constructs as well as sequencing compositions for their application.
Abstract translation: 用于核酸测序的组合物和方法包括在部分或完全邻接的构建体中包含双链部分的模板构建体，以通过测序有义链和反义链中的一个或两个进行冗余序列测定，并对整个构建体进行多次迭代测序。 额外的序列成分也可选地包括在这样的模板构建体内。 还提供了这些构建体的使用和制备方法以及其应用的测序组合物。
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