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1. 发明授权

US09194772B2 Apparatus, system, and method using immiscible-fluid-discrete-volumes 有权
标题翻译：使用不混溶流体离散体的装置，系统和方法
公开(公告)号：US09194772B2
公开(公告)日：2015-11-24
申请号：US12557488
申请日：2009-09-10
申请人： Linda Lee , Sam Woo , Congcong Ma , Richard Reel , Mark Oldham , David Cox , Benjamin Schroeder , Jon Sorenson , Willy Wiyatno
发明人： Linda Lee , Sam Woo , Congcong Ma , Richard Reel , Mark Oldham , David Cox , Benjamin Schroeder , Jon Sorenson , Willy Wiyatno
IPC分类号： C12Q1/68 , C12M1/34 , G01N1/14 , B01L3/00 , F15C5/00 , F16K99/00 , G01N35/08 , B01L3/02 , B01L7/00
CPC分类号： C12Q1/6869 , B01J2219/00353 , B01J2219/0036 , B01J2219/00364 , B01J2219/00608 , B01J2219/0061 , B01J2219/00612 , B01J2219/00619 , B01J2219/00626 , B01J2219/00637 , B01J2219/00653 , B01J2219/00657 , B01J2219/00659 , B01L3/0293 , B01L3/502715 , B01L3/502784 , B01L7/52 , B01L2200/0673 , B01L2200/10 , B01L2300/0864 , B01L2300/0867 , B01L2400/0421 , B01L2400/0487 , C12Q1/6806 , C12Q1/6874 , F15C5/00 , F16K99/0001 , F16K99/0011 , F16K99/0013 , F16K2099/0084 , G01N1/14 , G01N27/44743 , G01N27/44769 , G01N35/08 , Y10T137/0318 , Y10T137/4259 , Y10T137/85978 , Y10T137/85986 , Y10T137/86863 , Y10T436/2575 , C12Q2535/101
摘要： Various embodiments of the teachings relate to a system or method for sample preparation or analysis in biochemical or molecular biology procedures. The sample preparation can involve small volume processed in discrete portions or segments or slugs, herein referred to as discrete volumes. A molecular biology procedure can be nucleic acid analysis. Nucleic acid analysis can be an integrated DNA amplification/DNA sequencing procedure.
摘要翻译：本发明的各种实施方案涉及生物化学或分子生物学程序中用于样品制备或分析的系统或方法。样品制备可以涉及在离散部分或段或块中的小体积处理，在本文中称为离散体积。分子生物学程序可以是核酸分析。核酸分析可以是一个综合的DNA扩增/ DNA测序程序。

2. 发明申请

US20070141593A1 Apparatus, system, and method using immiscible-fluid-discrete-volumes 审中-公开
标题翻译：使用不混溶流体离散体的装置，系统和方法
公开(公告)号：US20070141593A1
公开(公告)日：2007-06-21
申请号：US11507735
申请日：2006-08-22
申请人： Linda Lee , Sam Woo , Congcong Ma , Richard Reel , Mark Oldham , David Cox , Benjamin Schroeder , Jon Sorenson , Willy Wiyatno
发明人： Linda Lee , Sam Woo , Congcong Ma , Richard Reel , Mark Oldham , David Cox , Benjamin Schroeder , Jon Sorenson , Willy Wiyatno
IPC分类号： C12Q1/68
CPC分类号： C12Q1/6869 , B01J2219/00353 , B01J2219/0036 , B01J2219/00364 , B01J2219/00608 , B01J2219/0061 , B01J2219/00612 , B01J2219/00619 , B01J2219/00626 , B01J2219/00637 , B01J2219/00653 , B01J2219/00657 , B01J2219/00659 , B01L3/0293 , B01L3/502715 , B01L3/502784 , B01L7/52 , B01L2200/0673 , B01L2200/10 , B01L2300/0864 , B01L2300/0867 , B01L2400/0421 , B01L2400/0487 , C12Q1/6806 , C12Q1/6874 , C12Q2535/101 , F15C5/00 , F16K99/0001 , F16K99/0011 , F16K99/0013 , F16K2099/0084 , G01N1/14 , G01N27/44743 , G01N27/44769 , G01N35/08 , Y10T137/0318 , Y10T137/4259 , Y10T137/85978 , Y10T137/85986 , Y10T137/86863 , Y10T436/2575
摘要： Various embodiments of the teachings relate to a system or method for sample preparation or analysis in biochemical or molecular biology procedures. The sample preparation can involve small volume processed in discrete portions or segments or slugs, herein referred to as discrete volumes. A molecular biology procedure can be nucleic acid analysis. Nucleic acid analysis can be an integrated DNA amplification/DNA sequencing procedure.
摘要翻译：本发明的各种实施方案涉及生物化学或分子生物学程序中用于样品制备或分析的系统或方法。样品制备可以涉及在离散部分或段或块中的小体积处理，在本文中称为离散体积。分子生物学程序可以是核酸分析。核酸分析可以是一个综合的DNA扩增/ DNA测序程序。

3. 发明申请

US20070039866A1 Device, system, and method for depositing processed immiscible-fluid-discrete-volumes 有权
标题翻译：用于存放经处理的不混溶流体离散体的装置，系统和方法
公开(公告)号：US20070039866A1
公开(公告)日：2007-02-22
申请号：US11507733
申请日：2006-08-22
申请人： Benjamin Schroeder , David Cox , Mark Oldham , Richard Reel , Willy Wiyatno
发明人： Benjamin Schroeder , David Cox , Mark Oldham , Richard Reel , Willy Wiyatno
IPC分类号： B01D24/00
CPC分类号： C12Q1/6869 , B01J2219/00353 , B01J2219/0036 , B01J2219/00364 , B01J2219/00608 , B01J2219/0061 , B01J2219/00612 , B01J2219/00619 , B01J2219/00626 , B01J2219/00637 , B01J2219/00653 , B01J2219/00657 , B01J2219/00659 , B01L3/0293 , B01L3/502715 , B01L3/502784 , B01L7/52 , B01L2200/0673 , B01L2200/10 , B01L2300/0864 , B01L2300/0867 , B01L2400/0421 , B01L2400/0487 , C12Q1/6806 , C12Q1/6874 , F15C5/00 , F16K99/0001 , F16K99/0011 , F16K99/0013 , F16K2099/0084 , G01N1/14 , G01N27/44743 , G01N27/44769 , G01N35/08 , Y10T137/0318 , Y10T137/4259 , Y10T137/85978 , Y10T137/85986 , Y10T137/86863 , Y10T436/2575 , C12Q2535/101
摘要： Various embodiments relate to systems and/or methods for sample preparation that can be used for biochemical and/or molecular biology procedures involving small volumes, for example, micro volumes or smaller. Methods and systems that can reduce sample size requirements and increase the number of samples on a substrate are provided. Samples can be applied to a plate or other appropriate substrate and can be used for, inter alia, sequencing reactions. In some embodiments, apparatuses, systems, and/or methods for charged analyte collection are provided. Charged analytes in a sample can be electrokinetically collected or extracted from a conduit through a hole formed in a sidewall of the conduit, by application of an electric field that causes the charged analytes to migrate in a direction that is transverse to the conduit.
摘要翻译：各种实施方案涉及用于样品制备的系统和/或方法，其可用于涉及小体积例如微量或更小的生物化学和/或分子生物学过程。提供了可以减少样品尺寸要求并增加基材上样品数量的方法和系统。样品可以施用于板或其它合适的底物，并且可以用于尤其是测序反应。在一些实施例中，提供了用于带电分析物收集的装置，系统和/或方法。通过施加导致带电分析物沿横向于导管的方向迁移的电场，样品中的带电分析物可以通过形成在导管侧壁中的孔从导管电动收集或提取。

4. 发明申请

US20070026430A1 PROXIMITY PROBING OF TARGET PROTEINS COMPRISING RESTRICTION AND/OR EXTENSION 审中-公开
标题翻译：包含限制和/或扩展的目标蛋白质的临近检测
公开(公告)号：US20070026430A1
公开(公告)日：2007-02-01
申请号：US11428191
申请日：2006-06-30
申请人： Mark Andersen , Benjamin Schroeder , Kai Lao
发明人： Mark Andersen , Benjamin Schroeder , Kai Lao
IPC分类号： C12Q1/68 , C07H21/04 , C12P19/34
CPC分类号： C12Q1/6813 , C12Q1/686 , C12Q2525/301 , C12Q2533/101 , C12Q2521/301
摘要： The present teachings provide methods, compositions, and kits for detecting target analytes, including proteins. In some embodiments, cleavage reactions are performed in the context of proximity probe reactions that query target proteins, wherein the presence and/or quantity of cleavage products is indicative of the presence and/or quantity of a target protein. In some embodiments, the cleavage fragments are quantitated using a real time PCR assay comprising a stem-loop primer, wherein the stem-loop primer comprises a self-complementary hairpin structure and a free 3′ end end complementary to the cleavage product. In some embodiments, polymerase extension approaches are employed in the context of proximity probe reactions.
摘要翻译：本教导提供了用于检测目标分析物（包括蛋白质）的方法，组合物和试剂盒。在一些实施方案中，裂解反应在查询靶蛋白的邻近探针反应的上下文中进行，其中切割产物的存在和/或数量指示靶蛋白的存在和/或数量。在一些实施方案中，使用包含茎环引物的实时PCR测定法定量切割片段，其中茎环引物包含自身互补的发夹结构和与切割产物互补的游离的3'末端。在一些实施方案中，在邻近探针反应的上下文中使用聚合酶延伸方法。

5. 发明申请

US20100120034A1 METHYLATION ANALYSIS OF MATE PAIRS 审中-公开
标题翻译： MATE PAIRS的甲基化分析
公开(公告)号：US20100120034A1
公开(公告)日：2010-05-13
申请号：US12498285
申请日：2009-07-06
申请人： Kevin McKernan , Benjamin Schroeder , Victoria Boyd
发明人： Kevin McKernan , Benjamin Schroeder , Victoria Boyd
IPC分类号： C12Q1/68 , C07H21/04
CPC分类号： C12Q1/6827 , C12Q1/686 , C12Q2525/307 , C12Q2525/191 , C12Q2521/331
摘要： Various embodiments of the present teachings relate to methods for the methylation analysis of nucleic acids. The subject methods include methods that result in the preparation of mate-pair libraries suitable for highly multiplexed DNA sequencing. Embodiments include methods of preparing mate-pair libraries comprising a first tag sequence and a second tag sequence, wherein one of the tag sequences has been converted by a methylation conversion agent and the other tag sequence has not been converted by the methylation conversion agent. Other embodiments provided include intermediates for making the mate-pair library and kits for making the mate-pair libraries. Also provided is software and computer systems for analyzing the methylation levels of genomic DNA from which the tag sequences were derived.
摘要翻译：本发明的各种实施方案涉及核酸甲基化分析的方法。主题方法包括导致适合于高度多重化DNA测序的配偶对文库的制备的方法。实施方案包括制备包含第一标签序列和第二标签序列的伴侣对文库的方法，其中标签序列之一已被甲基化转化剂转化，另一个标签序列尚未被甲基化转化剂转化。提供的其它实施方案包括用于制备配对文库和用于制备配对文库的试剂盒的中间体。还提供了用于分析衍生标签序列的基因组DNA的甲基化水平的软件和计算机系统。

6. 发明申请

US20050186606A1 Methods and compositions for detecting nucleic acids 审中-公开
标题翻译：用于检测核酸的方法和组合物
公开(公告)号：US20050186606A1
公开(公告)日：2005-08-25
申请号：US11055849
申请日：2005-02-11
申请人： Benjamin Schroeder
发明人： Benjamin Schroeder
IPC分类号： C12N9/22 , C12Q1/68
CPC分类号： C12Q1/6813
摘要： A reporter molecule for detecting a nucleic acid is disclosed. The molecule comprises an enzyme having a kcat of at least about 200 sec−1, a reversible inhibitor of the enzyme inhibitorily engaging the enzyme, and a nucleobase polymer extending between the enzyme and the inhibitor. The polymer interferes with the engagement between the inhibitor and the enzyme when the nucleic acid contacts the polymer. Methods of making and methods of using the reporter molecule are also disclosed.
摘要翻译：公开了用于检测核酸的报告分子。该分子包含具有至少约200秒-1的氨基酸的酶，与酶紧密接触的酶的可逆抑制剂和在该酶之间延伸的核碱基聚合物和抑制剂。当核酸与聚合物接触时，聚合物干扰抑制剂和酶之间的接合。还公开了制备方法和使用报道分子的方法。

7. 发明授权

US08293502B2 Emulsion PCR and amplicon capture 有权
标题翻译：乳液PCR和扩增子捕获
公开(公告)号：US08293502B2
公开(公告)日：2012-10-23
申请号：US13087278
申请日：2011-04-14
申请人： Benjamin Schroeder
发明人： Benjamin Schroeder
IPC分类号： C12P19/34 , C07H21/04 , C07H21/00
CPC分类号： C40B80/00 , B01J2219/00605 , B01J2219/0061 , B01J2219/00612 , B01J2219/0063 , B01J2219/00637 , B01J2219/00648 , C12Q1/6834 , C40B30/04 , C40B40/06 , C12Q2563/131
摘要： Compositions and methods of use are disclosed for clonally amplifying target polynucleotide sequences in solution and attaching the amplicons to a surface by activation of a masked binding moiety. In an embodiment, the amplicons comprise the masked binding moiety and the surface comprises a binding partner of the binding moiety. Upon activation of the binding moiety, the amplicons bind to the binding partner on the surface. In a non-limiting example, the masked binding moiety is caged biotin or caged fluorescein, while the corresponding binding partner is avidin or an anti-fluorescein antibody.
摘要翻译：公开了组合物和使用方法，用于克隆扩增溶液中的靶多核苷酸序列，并通过激活掩蔽的结合部分将扩增子连接到表面。在一个实施方案中，扩增子包含掩蔽的结合部分，并且表面包含结合部分的结合配偶体。激活结合部分后，扩增子与表面上的结合配偶体结合。在非限制性实例中，掩蔽的结合部分被笼养的生物素或笼养的荧光素，而相应的结合配偶体是抗生物素蛋白或抗荧光素抗体。

8. 发明授权

US07947477B2 Emulsion PCR and amplicon capture 有权
标题翻译：乳液PCR和扩增子捕获
公开(公告)号：US07947477B2
公开(公告)日：2011-05-24
申请号：US12693420
申请日：2010-01-25
申请人： Benjamin Schroeder
发明人： Benjamin Schroeder
IPC分类号： C12P19/34 , C07H21/00
CPC分类号： C40B80/00 , B01J2219/00605 , B01J2219/0061 , B01J2219/00612 , B01J2219/0063 , B01J2219/00637 , B01J2219/00648 , C12Q1/6834 , C40B30/04 , C40B40/06 , C12Q2563/131
摘要： Compositions and methods of use are disclosed for clonally amplifying target polynucleotide sequences in solution and attaching the amplicons to a surface by activation of a masked binding moiety. In an embodiment, the amplicons comprise the masked binding moiety and the surface comprises a binding partner of the binding moiety. Upon activation of the binding moiety, the amplicons bind to the binding partner on the surface. In a non-limiting example, the masked binding moiety is caged biotin or caged fluorescein, while the corresponding binding partner is avidin or an anti-fluorescein antibody.
摘要翻译：公开了组合物和使用方法，用于克隆扩增溶液中的靶多核苷酸序列，并通过激活掩蔽的结合部分将扩增子连接到表面。在一个实施方案中，扩增子包含掩蔽的结合部分，并且表面包含结合部分的结合配偶体。激活结合部分后，扩增子与表面上的结合配偶体结合。在非限制性实例中，掩蔽的结合部分被笼养的生物素或笼养的荧光素，而相应的结合配偶体是抗生物素蛋白或抗荧光素抗体。

9. 发明申请

US20060286581A1 Heteroconfigurational Polynucleotides and Methods of Use 审中-公开
公开(公告)号：US20060286581A1
公开(公告)日：2006-12-21
申请号：US11425788
申请日：2006-06-22
申请人： Stefan Matysiak , Benjamin Schroeder , Ravi Vinayak , I. Greenfield
发明人： Stefan Matysiak , Benjamin Schroeder , Ravi Vinayak , I. Greenfield
IPC分类号： C12Q1/68 , C07K14/47 , C07H21/02 , C12M1/34 , C07H21/04
CPC分类号： C12Q1/6837 , B82Y5/00 , B82Y10/00 , B82Y20/00 , C07H21/00
摘要： Methods, compositions and kits are disclosed that utilize heteroconfigurational polynucleotide comprising a D-form polynucleotide sequence portion and an L-form polynucleotide sequence portion that is covalently linked to the D-form polynucleotide sequence portion.

10. 发明申请

US20050069895A1 Compositions, methods, and kits for fabricating coded molecular tags 审中-公开
标题翻译：用于制作编码分子标签的组合物，方法和试剂盒
公开(公告)号：US20050069895A1
公开(公告)日：2005-03-31
申请号：US10651561
申请日：2003-08-29
申请人： Timothy Woudenberg , Dar Bahatt , Muhammad Sharaf , Timothy Liu , Serguei Ermakov , Charles Connell , Jens Hyldig-Nielsen , Benjamin Schroeder , Paolo Vatta
发明人： Timothy Woudenberg , Dar Bahatt , Muhammad Sharaf , Timothy Liu , Serguei Ermakov , Charles Connell , Jens Hyldig-Nielsen , Benjamin Schroeder , Paolo Vatta
IPC分类号： C12Q1/68 , G01N33/532 , G01N33/533 , G01N35/00 , G01N33/543
CPC分类号： G01N33/533 , C12Q1/6816 , G01N33/532 , G01N2035/00158 , C12Q2565/102 , C12Q2563/179
摘要： The teachings herein generally relates to probes comprising fabricated coded molecular tags for detecting analytes. The teachings also relate to compositions, methods, and kits for fabricating coded molecular tags comprising a multiplicity or reporter groups in an ordered pattern.
摘要翻译：本文的教导通常涉及包含用于检测分析物的制造的编码分子标签的探针。该教导还涉及用于制造编码分子标签的组合物，方法和试剂盒，其包含有序图案中的多个或报告基团。

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