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公开(公告)号：US20120164631A1
公开(公告)日：2012-06-28
申请号：US13169991
申请日：2011-06-27
Applicant: Stephen Turner , Jonas Korlach
Inventor： Stephen Turner , Jonas Korlach
CPC classification number: G01N21/77 , C12Q1/6806 , C12Q1/6869 , G01N21/00 , G01N21/6428 , G01N21/645 , G01N21/6452 , G01N21/648 , G01N2021/6439 , G01N2021/6463 , G01N2021/7786 , G01N2201/06113
Abstract: The present invention relates to optical confinements, methods of preparing and methods of using them for analyzing molecules and/or monitoring chemical reactions. The apparatus and methods embodied in the present invention are particularly useful for high-throughput and low-cost single-molecular analysis.
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22.发明授权Articles having localized molecules disposed thereon and methods of producing same 有权具有位于其上的局部分子的制品及其制备方法公开(公告)号：US08193123B2
公开(公告)日：2012-06-05
申请号：US11978171
申请日：2007-10-26
Applicant: David R. Rank , Jeffery Wegener , Jonas Korlach , Daniel Roitman , Yue Xu , John Lyle , Stephen Turner , Paul Peluso , Geoff Otto , Ron Cicero
Inventor： David R. Rank , Jeffery Wegener , Jonas Korlach , Daniel Roitman , Yue Xu , John Lyle , Stephen Turner , Paul Peluso , Geoff Otto , Ron Cicero
IPC: C40B99/00
CPC classification number: C12Q1/6874 , B01J19/0046 , B01J2219/00427 , B01J2219/0045 , B01J2219/00605 , B01J2219/0061 , B01J2219/00612 , B01J2219/00617 , B01J2219/00626 , B01J2219/00635 , B01J2219/00637 , B01J2219/00639 , B01J2219/00659 , B01J2219/00711 , B01J2219/00722 , B82Y20/00 , B82Y30/00 , C12Q1/6837 , Y10T29/49002 , C12Q2565/629 , C12Q2527/127
Abstract: Methods of producing substrates having selected active chemical regions by employing elements of the substrates in assisting the localization of active chemical groups in desired regions of the substrate. The methods may include optical, chemical and/or mechanical processes for the deposition, removal, activation and/or deactivation of chemical groups in selected regions of the substrate to provide selective active regions of the substrate.
Abstract translation: 通过使用底物的元素来辅助活性化学基团在基底的所需区域中的定位来制备具有选定的活性化学区域的基底的方法。 所述方法可以包括用于沉积，去除，激活和/或去活衬底的选定区域中的化学基团的光学，化学和/或机械方法，以提供衬底的选择性活性区域。
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公开(公告)号：US20120085894A1
公开(公告)日：2012-04-12
申请号：US13274547
申请日：2011-10-17
Applicant: Cheng Frank Zhong , Paul Lundquist , Mathieu Foquet , Jonas Korlach , Hovig Bayandorian
Inventor： Cheng Frank Zhong , Paul Lundquist , Mathieu Foquet , Jonas Korlach , Hovig Bayandorian
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的底物，包括单分子分析反应。 提供了在基板内传播光能的方法。 提供了包括波导基板和电介质全向反射器的装置。 提供了在阵列的分析检测区域内具有改善的一个或多个波导上的光能强度均匀性和增强的波导照明效率的波导基板。
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公开(公告)号：US07943305B2
公开(公告)日：2011-05-17
申请号：US11279711
申请日：2006-04-13
Applicant: Jonas Korlach , Watt W. Webb , Michael Levene , Stephen Turner , Harold G. Craighead , Mathieu Foquet
Inventor： Jonas Korlach , Watt W. Webb , Michael Levene , Stephen Turner , Harold G. Craighead , Mathieu Foquet
CPC classification number: C12Q1/6874 , C12Q1/6869 , Y10S436/80 , Y10S436/805 , Y10T436/143333 , C12Q2565/537 , C12Q2537/149 , C12Q2561/113 , C12Q2521/543 , C12Q2565/518 , C12Q2561/12
Abstract: The present invention is directed to a method of sequencing a target nucleic acid molecule having a plurality of bases. In its principle, the temporal order of base additions during the polymerization reaction is measured on a molecule of nucleic acid. Each type of labeled nucleotide comprises an acceptor fluorophore attached to a phosphate portion of the nucleotide such that the fluorophore is removed upon incorporation into a growing strand. Fluorescent signal is emitted via fluorescent resonance energy transfer between the donor fluorophore and the acceptor fluorophore as each nucleotide is incorporated into the growing strand. The sequence is deduced by identifying which base is being incorporated into the growing strand.
Abstract translation: 本发明涉及对具有多个碱基的靶核酸分子进行测序的方法。 在其原理中，聚合反应中碱添加的时间顺序是在核酸分子上测量的。 每种类型的标记核苷酸包括连接到核苷酸的磷酸部分的受体荧光团，使得在掺入生长链中时除去荧光团。 当每个核苷酸并入生长链中时，通过供体荧光团和受体荧光团之间的荧光共振能量转移发射荧光信号。 通过鉴定哪个碱基被结合到生长链中推导出序列。
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公开(公告)号：US20100331194A1
公开(公告)日：2010-12-30
申请号：US12757789
申请日：2010-04-09
Applicant: Stephen Turner , Benjamin Flusberg , Mathieu Foquet , Hans Callebaut , Robert Sebra , Bidhan Chaudhuri , Jon Sorenson , Keith Bjornson , Adrian Fehr , Jonas Korlach , Robin Emig
Inventor： Stephen Turner , Benjamin Flusberg , Mathieu Foquet , Hans Callebaut , Robert Sebra , Bidhan Chaudhuri , Jon Sorenson , Keith Bjornson , Adrian Fehr , Jonas Korlach , Robin Emig
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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Patent Agency Ranking
公开(公告)号：US20100167299A1
公开(公告)日：2010-07-01
申请号：US12620293
申请日：2009-11-17
Applicant: Jonas Korlach
Inventor： Jonas Korlach
CPC classification number: C12Q1/6876 , C07H19/10 , C12Q1/6874 , G01N21/6486 , C12Q2565/629 , C12Q2563/155
Abstract: The present invention provides labeled phospholink nucleotides that can be used in place of naturally occurring nucleotide triphosphates or other analogs in template directed nucleic acid synthesis reactions and other nucleic acid reactions and various analyses based thereon, including DNA sequencing, single base identification, hybridization assays, and others.
Abstract translation: 本发明提供了可以在模板定向核酸合成反应和其他核酸反应中使用的代替天然存在的三磷酸核苷酸或其他类似物的标记的磷脂酰核苷酸，并且基于此进行各种分析，包括DNA测序，单碱基鉴定，杂交测定， 和别的。
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公开(公告)号：US20100152424A1
公开(公告)日：2010-06-17
申请号：US12621352
申请日：2009-11-18
Applicant: Jonas Korlach , Jeffrey Wegener
Inventor： Jonas Korlach , Jeffrey Wegener
CPC classification number: C12Q1/6869 , C07H19/10 , C12Q1/6818 , C12Q1/6874 , G01N33/5308
Abstract: Nucleic acid compositions, methods of making and using such compositions that comprise modular functional groups that can be configured to provide desired functionality to different nucleotide types through a swappable and preferably non-covalent linkage component. Such compositions are useful in a variety of applications including nucleic acid analyses.
Abstract translation: 核酸组合物，制备和使用这样的组合物的方法，所述组合物包含模块化官能团，其可被配置为通过可交换且优选非共价连接组分为不同核苷酸类型提供所需功能。 这样的组合物可用于各种应用，包括核酸分析。
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28.发明申请公开(公告)号：US20100075332A1
公开(公告)日：2010-03-25
申请号：US12584481
申请日：2009-09-04
Applicant: Pranav Patel , Jonas Korlach , Arkadiusz Bibillo , Keith Bjornson , Jeremiah Hanes
Inventor： Pranav Patel , Jonas Korlach , Arkadiusz Bibillo , Keith Bjornson , Jeremiah Hanes
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部分的反应条件。 还提供了包含修饰的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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公开(公告)号：US20090286245A1
公开(公告)日：2009-11-19
申请号：US12414191
申请日：2009-03-30
Applicant: Keith Bjornson , Harold Lee , Jonas Korlach , Stephen Turner , Arek Bibillo , Fred Christians , Robin Emig , Molly He , Insil Park , Lei Jia , Andrei Fedorov , John Lyle
Inventor： Keith Bjornson , Harold Lee , Jonas Korlach , Stephen Turner , Arek Bibillo , Fred Christians , Robin Emig , Molly He , Insil Park , Lei Jia , Andrei Fedorov , John Lyle
IPC: C12Q1/68
CPC classification number: C12Q1/6869 , C12Q1/6874 , C12Q2527/125 , C12Q2527/119 , C12Q2527/101 , C12Q2565/1015 , C12Q2527/137 , C12Q2521/101
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.
Abstract translation: 用于核苷酸测序的组合物，试剂盒，方法和系统，其包括产生聚合酶反应，其在聚合酶反应的可观察期内显示两个动力学可观察步骤。 可以通过例如选择合适的聚合酶，包括辅因子的聚合酶反应条件和包括引发的模板和核苷酸的聚合酶反应底物来产生两个缓慢的步骤系统。
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公开(公告)号：US20090137007A1
公开(公告)日：2009-05-28
申请号：US12265616
申请日：2008-11-05
Applicant: Jonas Korlach , Watt W. Webb , Michael Levene , Stephen Turner , Harold G. Craighead , Mathieu Foquet
Inventor： Jonas Korlach , Watt W. Webb , Michael Levene , Stephen Turner , Harold G. Craighead , Mathieu Foquet
CPC classification number: C12Q1/6874 , C12Q1/6869 , Y10S436/80 , Y10S436/805 , Y10T436/143333 , C12Q2565/537 , C12Q2537/149 , C12Q2561/113 , C12Q2521/543 , C12Q2565/518 , C12Q2561/12
Abstract: The present invention is directed to a method of sequencing a target nucleic acid molecule having a plurality of bases. In its principle, the temporal order of base additions during the polymerization reaction is measured on a molecule of nucleic acid, i.e. the activity of a nucleic acid polymerizing enzyme on the template nucleic acid molecule to be sequenced is followed in real time. The sequence is deduced by identifying which base is being incorporated into the growing complementary strand of the target nucleic acid by the catalytic activity of the nucleic acid polymerizing enzyme at each step in the sequence of base additions. A polymerase on the target nucleic acid molecule complex is provided in a position suitable to move along the target nucleic acid molecule and extend the oligonucleotide primer at an active site. A plurality of labelled types of nucleotide analogs are provided proximate to the active site, with each distinguishable type of nucleotide analog being complementary to a different nucleotide in the target nucleic acid sequence. The growing nucleic acid strand is extended by using the polymerase to add a nucleotide analog to the nucleic acid strand at the active site, where the nucleotide analog being added is complementary to the nucleotide of the target nucleic acid at the active site. The nucleotide analog added to the oligonucleotide primer as a result of the polymerizing step is identified. The steps of providing labelled nucleotide analogs, polymerizing the growing nucleic acid strand, and identifying the added nucleotide analog are repeated so that the nucleic acid strand is further extended and the sequence of the target nucleic acid is determined.
Abstract translation: 本发明涉及对具有多个碱基的靶核酸分子进行测序的方法。 在其原理中，聚合反应中碱添加的时间顺序是在核酸分子上测量的，即核酸聚合酶在待测序的模板核酸分子上的活性被实时跟踪。 通过在碱添加序列的每个步骤中通过核酸聚合酶的催化活性鉴定哪个碱基被掺入靶核酸的生长互补链中来推断该序列。 在靶核酸分子复合物上提供聚合酶，其适于沿着靶核酸分子移动并在活性位点延伸寡核苷酸引物。 多个标记类型的核苷酸类似物在活性位点附近提供，每种可区分类型的核苷酸类似物与靶核酸序列中的不同核苷酸互补。 生长的核酸链通过使用聚合酶延伸到活性位点处的核酸链的核苷酸类似物，其中加入的核苷酸类似物与活性位点上的靶核酸的核苷酸互补。 鉴定作为聚合步骤的结果添加到寡核苷酸引物中的核苷酸类似物。 重复提供标记的核苷酸类似物，聚合生长的核酸链和鉴定添加的核苷酸类似物的步骤，使得核酸链进一步延长并确定靶核酸的序列。
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