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1. 发明申请

US20050095610A1 Method of generating size standard nucleic acids 审中-公开
标题翻译：产生大小标准核酸的方法
公开(公告)号：US20050095610A1
公开(公告)日：2005-05-05
申请号：US10819657
申请日：2004-04-07
申请人： Sophia Kuo , Chu-an Chang , Shiaw-Min Chen , Sandra Spurgeon
发明人： Sophia Kuo , Chu-an Chang , Shiaw-Min Chen , Sandra Spurgeon
IPC分类号： C07H21/00 , C12N20060101 , C12P19/34 , C12Q1/68
CPC分类号： C07H21/00 , C12Q1/6806 , C12Q2533/101 , C12Q2525/204 , C12Q2525/151
摘要： Methods for generating nucleic acid size standards are disclosed. The methods comprise providing a template polynucleotide which comprises periodic sequences of from about 5 to about 50 contiguous nucleotides containing not more than three types of nucleotides and wherein adjacent periodic sequences are separated by a terminator complement nucleotide that differs from the not more than three types of nucleotides, and performing a primer extension reaction on the template polynucleotide in the presence of nucleoside triphosphate molecules and a 3′ terminating nucleoside triphosphate which is complementary to the terminator complement nucleotide.
摘要翻译：公开了产生核酸尺寸标准的方法。所述方法包括提供模板多核苷酸，其包含约5至约50个连续核苷酸的周期性序列，所述连续核苷酸含有不超过3种类型的核苷酸，并且其中相邻的周期性序列由终止子补体核苷酸分开，其不同于不超过三种类型核苷酸，并且在核苷三磷酸分子和与终止子补体核苷酸互补的3'末端核苷三磷酸存在下对模板多核苷酸进行引物延伸反应。

2. 发明申请

US20070254343A1 METHOD OF GENERATING LONG NUCLEIC ACID MOLECULES OF DEFINED SEQUENCE 有权
标题翻译：产生定义序列的长核酸分子的方法
公开(公告)号：US20070254343A1
公开(公告)日：2007-11-01
申请号：US11770787
申请日：2007-06-29
申请人： Chu-an Chang , Shiaw-Min Chen
发明人： Chu-an Chang , Shiaw-Min Chen
IPC分类号： C12P19/34
CPC分类号： C12N15/1031
摘要： A method of generating a single-stranded nucleic acid molecule comprising (a) combining in a mixture under conditions suitable for a polymerase extension reaction, (i) a polymerase, (ii) an initial polynucleotide comprising a 5′ portion and a 3′ portion, wherein the polynucleotide forms the nucleic acid molecule 5′ end; and (iii) a plurality of overlapping template oligonucleotides each having a 5′ template portion and a 3′ portion. The method further comprises (b) hybridizing the initial polynucleotide or the extension polynucleotide and one of the template oligonucleotides; (c) incubating the mixture for sufficient time to allow an extension polynucleotide to be synthesized; (d) adding a competimer that competes with the template oligonucleotide in step (b); (e) denaturing the extension polynucleotide and template oligonucleotide; and (f) repeating steps (b), (c), (d), and (e) to generate the single-stranded nucleic acid molecule, wherein the number of repeated cycles equals the number of different template oligonucleotides.
摘要翻译：一种产生单链核酸分子的方法，包括（a）在适于聚合酶延伸反应的条件下在混合物中混合，（i）聚合酶，（ii）包含5'部分和3'部分的初始多核苷酸，其中所述多核苷酸形成核酸分子5'末端; 和（iii）多个具有5'模板部分和3'部分的重叠模板寡核苷酸。该方法还包括（b）使初始多核苷酸或延伸多核苷酸与模板寡核苷酸之一杂交; （c）将混合物温育足够的时间以允许合成延伸的多核苷酸; （d）在步骤（b）中加入与模板寡核苷酸竞争的竞争体; （e）使延伸多核苷酸和模板寡核苷酸变性; 和（f）重复步骤（b），（c），（d）和（e）以产生单链核酸分子，其中重复循环的数量等于不同模板寡核苷酸的数目。

3. 发明授权

US07534569B2 Method of generating long nucleic acid molecules of defined sequence 有权
标题翻译：产生具有规定序列的长核酸分子的方法
公开(公告)号：US07534569B2
公开(公告)日：2009-05-19
申请号：US11770787
申请日：2007-06-29
申请人： Chu-An Chang , Shiaw-Min Chen
发明人： Chu-An Chang , Shiaw-Min Chen
IPC分类号： C12Q1/66 , C07H21/02 , C07H21/04
CPC分类号： C12N15/1031
摘要： A method of generating a single-stranded nucleic acid molecule comprising (a) combining in a mixture under conditions suitable for a polymerase extension reaction, (i) a polymerase, (ii) an initial polynucleotide comprising a 5′ portion and a 3′ portion, wherein the polynucleotide forms the nucleic acid molecule 5′ end; and (iii) a plurality of overlapping template oligonucleotides each having a 5′ template portion and a 3′ portion. The method further comprises (b) hybridizing the initial polynucleotide or the extension polynucleotide and one of the template oligonucleotides; (c) incubating the mixture for sufficient time to allow an extension polynucleotide to be synthesized; (d) adding a competimer that competes with the template oligonucleotide in step (b); (e) denaturing the extension polynucleotide and template oligonucleotide; and (f) repeating steps (b), (c), (d), and (e) to generate the single-stranded nucleic acid molecule, wherein the number of repeated cycles equals the number of different template oligonucleotides.
摘要翻译：一种产生单链核酸分子的方法，包括（a）在适于聚合酶延伸反应的条件下在混合物中混合，（i）聚合酶，（ii）包含5'部分和3'部分的初始多核苷酸，其中所述多核苷酸形成核酸分子5'末端; 和（iii）多个具有5'模板部分和3'部分的重叠模板寡核苷酸。该方法还包括（b）使初始多核苷酸或延伸多核苷酸与模板寡核苷酸之一杂交; （c）将混合物温育足够的时间以允许合成延伸的多核苷酸; （d）在步骤（b）中加入与模板寡核苷酸竞争的竞争体; （e）使延伸多核苷酸和模板寡核苷酸变性; 和（f）重复步骤（b），（c），（d）和（e）以产生单链核酸分子，其中重复循环的数量等于不同模板寡核苷酸的数目。

4. 发明申请

US20120196294A1 WORKFLOW FOR DETECTION OF LIGANDS USING NUCLEIC ACIDS 审中-公开
标题翻译：检测使用核酸的配体的工作流程
公开(公告)号：US20120196294A1
公开(公告)日：2012-08-02
申请号：US13352237
申请日：2012-01-17
申请人： Shiaw-Min Chen , Elana Swartzman , David Ruff , Mark Shannon , Julia Lu , Stephen Hendricks
发明人： Shiaw-Min Chen , Elana Swartzman , David Ruff , Mark Shannon , Julia Lu , Stephen Hendricks
IPC分类号： C12Q1/68
CPC分类号： C12Q1/6855 , C12Q1/6804 , C12Q2537/101 , C12Q2561/101 , C12Q2561/125
摘要： This application relates to methods for ligating oligonucleotides having complementarity to a target nucleic acid, and amplifying the ligated oligonucleotides, where ligation and amplification occur in the same reaction mixture.
摘要翻译：本申请涉及用于连接与靶核酸互补的寡核苷酸的方法，并扩增连接的寡核苷酸，其中连接和扩增发生在相同的反应混合物中。

5. 发明授权

US07700287B2 Compositions and methods for terminating a sequencing reaction at a specific location in a target DNA template 有权
标题翻译：用于在目标DNA模板中的特定位置终止测序反应的组合物和方法
公开(公告)号：US07700287B2
公开(公告)日：2010-04-20
申请号：US11341321
申请日：2006-01-27
申请人： Shiaw-Min Chen , John W. Brandis
发明人： Shiaw-Min Chen , John W. Brandis
IPC分类号： C12Q1/68 , C12P19/34 , C07H21/04
CPC分类号： C12Q1/6869 , C12Q2525/186 , C12Q2537/143 , C12Q2525/155
摘要： Compositions and methods for sequencing a template polynucleotide comprising a sequence of interest are provided herein. The compositions and methods employ at least one blocking probe that is designed to bind in a sequence-specific manner to a blocking sequence such that primer extension beyond the site where the blocking probe binds is reduced or prevented.
摘要翻译：本文提供了用于测序包含感兴趣序列的模板多核苷酸的组合物和方法。组合物和方法使用至少一种阻断探针，其被设计为以序列特异性方式结合阻断序列，从而减少或阻止超出阻断探针结合部位的引物延伸。

6. 发明授权

US07593819B2 Internal calibration standards for electrophoretic analyses 有权
标题翻译：电泳分析的内部校准标准
公开(公告)号：US07593819B2
公开(公告)日：2009-09-22
申请号：US10193776
申请日：2002-07-11
申请人： Timothy Hunkapiller , Cheryl Heiner , Curtis Gehman , James Labrenz , Shiaw-Min Chen
发明人： Timothy Hunkapiller , Cheryl Heiner , Curtis Gehman , James Labrenz , Shiaw-Min Chen
IPC分类号： G01N33/50 , C12Q1/68
CPC分类号： G01N27/44726
摘要： The present teachings relate, among other things, to polynucleotide sequencing, fragment analysis and sample/lane tracking, and to polynucleotide sequencers and analyzers that employ optical detection techniques. Embodiments of the present teachings are described which include, for example, the addition of a calibration standard to a sequencing reaction. Information such as peak spacing and peak shape can he extracted from the standard.
摘要翻译：本教导涉及多核苷酸测序，片段分析和样品/泳道跟踪，以及使用光学检测技术的多核苷酸测序仪和分析仪。描述了本教导的实施例，其包括例如向测序反应添加校准标准。可以从标准中提取峰间距和峰形等信息。

7. 发明授权

US10208335B2 Methods for the analysis of proximity binding assay data 有权
公开(公告)号：US10208335B2
公开(公告)日：2019-02-19
申请号：US12851532
申请日：2010-08-05
申请人： Shiaw-Min Chen , David W. Ruff , Harrison M. Leong
发明人： Shiaw-Min Chen , David W. Ruff , Harrison M. Leong
IPC分类号： G06F19/24 , G06F19/00 , G06F17/00 , C12Q1/6844 , G06F19/20
摘要： Various embodiments of methods for analyzing proximity binding assay (PBA) data are disclosed. Proximity binding assays as a class of analyses offer the advantages of the sensitivity and specificity of biorecognition binding, along with the exponential signal amplification offered by a variety of oligonucleotide amplification reactions, such as the polymerase chain reaction (PCR). However, as various proximity binding assays have reaction kinetics governed by an additional step of the binding of a biorecognition probe (BRP) with a target molecule, there is a need for methods for the analysis of PBA data that are particularly suited to the unique characteristics of such data.

8. 发明申请

US20110208441A1 Methods for the Analysis of Proximity Binding Assay Data 审中-公开
标题翻译：接近结合测定数据分析方法
公开(公告)号：US20110208441A1
公开(公告)日：2011-08-25
申请号：US12851532
申请日：2010-08-05
申请人： Shiaw-Min Chen , David W. Ruff , Harrison M. Leong
发明人： Shiaw-Min Chen , David W. Ruff , Harrison M. Leong
IPC分类号： G06F19/00
CPC分类号： C12Q1/6844 , G06F19/20 , G06F19/24 , C12Q2545/114
摘要： Various embodiments of methods for analyzing proximity binding assay (PBA) data are disclosed. Proximity binding assays as a class of analyses offer the advantages of the sensitivity and specificity of biorecognition binding, along with the exponential signal amplification offered by a variety of oligonucleotide amplification reactions, such as the polymerase chain reaction (PCR). However, as various proximity binding assays have reaction kinetics governed by an additional step of the binding of a biorecognition probe (BRP) with a target molecule, there is a need for methods for the analysis of PBA data that are particularly suited to the unique characteristics of such data.
摘要翻译：公开了用于分析邻近结合测定（PBA）数据的方法的各种实施方案。作为一类分析的接近结合测定提供了生物识别结合的灵敏度和特异性以及由多种寡核苷酸扩增反应（例如聚合酶链反应（PCR））提供的指数信号扩增的优点。然而，由于各种邻近结合测定具有由生物识别探针（BRP）与靶分子结合的附加步骤所决定的反应动力学，因此需要分析特别适合于独特特征的PBA数据的方法的数据。

9. 发明授权

US08268558B2 Internal calibration standards for electrophoretic analyses 有权
标题翻译：电泳分析的内部校准标准
公开(公告)号：US08268558B2
公开(公告)日：2012-09-18
申请号：US12562070
申请日：2009-09-17
申请人： Timothy Hunkapiller , Cheryl Heiner , Curtis Gehman , James Labrenz , Shiaw-Min Chen
发明人： Timothy Hunkapiller , Cheryl Heiner , Curtis Gehman , James Labrenz , Shiaw-Min Chen
IPC分类号： C12Q1/68 , C12P19/34 , C07H21/02 , C07H21/04
CPC分类号： G01N27/44726
摘要： The present teachings relate, among other things, to polynucleotide sequencing, fragment analysis and sample/lane tracking, and to polynucleotide sequencers and analyzers that employ optical detection techniques. Embodiments of the present teachings are described which include, for example, the addition of a calibration standard to a sequencing reaction. Information such as peak spacing and peak shape can be extracted from the standard.
摘要翻译：本教导涉及多核苷酸测序，片段分析和样品/泳道跟踪，以及使用光学检测技术的多核苷酸测序仪和分析仪。描述了本教导的实施例，其包括例如向测序反应添加校准标准。可以从标准中提取峰间距和峰形等信息。

10. 发明授权

US06168701A Methods and compositions for improving the loading of analytical instruments 有权
标题翻译：提高分析仪器负荷的方法和组成
公开(公告)号：US06168701A
公开(公告)日：2001-01-02
申请号：US09303789
申请日：1999-04-30
申请人： Shiaw-Min Chen , Cheryl R. Heiner , Adam L. Lowe
发明人： Shiaw-Min Chen , Cheryl R. Heiner , Adam L. Lowe
IPC分类号： G01N2726
CPC分类号： G01N27/44726 , G01N27/44743 , Y10T436/25
摘要： The invention relates to improved methods and compositions for loading samples into an analytical instrument having a plurality of sample receiving loading ports. In a principle embodiment of the invention, first and second sample markers are added to sample to be loaded onto an analytical instrument having a plurality of sample receiving loading ports. The first and second samples are compounds are selected so as to produce a distinctive signal upon combination thus a sample containing a first sample marker and a sample containing a second marker are mistakenly loaded into the same sample receiving loading port, a detectable signal indicative of the misloading is produced.
摘要翻译：本发明涉及用于将样品装载到具有多个样品接收加载端口的分析仪器中的改进的方法和组合物。在本发明的主要实施例中，将第一和第二样品标记物添加到待加载到具有多个样品接收加载端口的分析仪器上的样品中。选择第一和第二样品是为了在组合时产生独特的信号，因此含有第一样品标记物和含有第二标记物的样品的样品被错误地加载到相同的样品接收加载端口中，可检测信号指示产生错位。

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