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1. 发明申请

WO2009135212A3 SELECTIVE 5' LIGATION TAGGING OF RNA 审中-公开
公开(公告)号：WO2009135212A3
公开(公告)日：2009-11-05
申请号：PCT/US2009/042723
申请日：2009-05-04
申请人： JENDRISAK, Jerome, J. , VAIDYANATHAN, Ramesh , DAHL, Gary , EPICENTRE TECHNOLOGIES CORPORATION
发明人： JENDRISAK, Jerome, J. , VAIDYANATHAN, Ramesh , DAHL, Gary
IPC分类号： C12N15/10 , C12N15/11 , C07H21/02 , C12Q1/68
摘要： The present invention provides novel compositions, kits and methods employing RNA 5' polyphosphatases, RNA 5' monophosphatases, capping enzymes, decapping enzymes, nucleic acid pyrophosphatases and RNA ligases, as well as other enzymes, for selective 5' ligation tagging of desired classes of RNA molecules that differ with respect to particular chemical moieties on their 5' ends. The 5'tagged RNA molecules can be used for synthesis of tagged first-stand cDNA, double-stranded cDNA, and sense or antisense RNA for a variety of uses.

2. 发明申请

WO2012103545A1 OLIGONUCLEOTIDE REPLACEMENT FOR DI-TAGGED AND DIRECTIONAL LIBRARIES 审中-公开
标题翻译：用于标识和方向图书馆的寡核苷酸替换
公开(公告)号：WO2012103545A1
公开(公告)日：2012-08-02
申请号：PCT/US2012/023139
申请日：2012-01-30
申请人： ILLUMINA, INC. , GORYSHIN, Igor , BAAS, Bradely , VAIDYANATHAN, Ramesh , MAFFITT, Mark
发明人： GORYSHIN, Igor , BAAS, Bradely , VAIDYANATHAN, Ramesh , MAFFITT, Mark
IPC分类号： C12N15/10 , C12Q1/68
CPC分类号： C12N15/1065 , C07H21/00 , C12N9/1241 , C12N15/1093 , C12P19/34 , C12Q1/6855 , C40B50/06
摘要： Transposomes and oligonucleotide replacement methods to make DNA libraries that have distinct 5' and 3' tags, and to make directional libraries that are enriched for a desired strand.
摘要翻译：用于制备具有不同5'和3'标签的DNA文库的转座子和寡核苷酸替代方法，并制备富集所需链的定向文库。

3. 发明申请

WO2011056866A3 METHODS AND KITS FOR 3'-END-TAGGING OF RNA 审中-公开
公开(公告)号：WO2011056866A3
公开(公告)日：2011-05-12
申请号：PCT/US2010/055292
申请日：2010-11-03
申请人： EPICENTRE TECHNOLOGIES CORPORATION , VAIDYANATHAN, Ramesh , KUERSTEN, Scott , DOYLE, Ken
发明人： VAIDYANATHAN, Ramesh , KUERSTEN, Scott , DOYLE, Ken
IPC分类号： C12Q1/68 , C12N15/10 , C12N15/11
摘要： The present innovation provides methods and kits that enable rapid and efficient dual end-tagging of RNA to prepare libraries for analysis by applications such as next-generation RNA sequencing, qPCR, microarray analysis, or cloning. The methods do not require time-consuming and inefficient gel-purification steps that are common to methods known in the art. In addition, the present invention provides methods and kits for rapid, high-throughput enzymatic preparation of 5'-activated, 3'-blocked DNA oligonucleotides from standard, single-stranded DNA oligonucleotides.

4. 发明申请

WO2009135214A2 RNA POLYPHOSPHATASE COMPOSITIONS, KITS, AND USES THEREOF 审中-公开
标题翻译： RNA多磷酸酯组合物，胶囊及其用途
公开(公告)号：WO2009135214A2
公开(公告)日：2009-11-05
申请号：PCT/US2009/042729
申请日：2009-05-04
申请人： EPICENTRE TECHNOLOGIES CORPORATION , JENDRISAK, Jerome, J. , VAIDYANATHAN, Ramesh , MEIS, Ronald
发明人： JENDRISAK, Jerome, J. , VAIDYANATHAN, Ramesh , MEIS, Ronald
IPC分类号： C12N9/14 , C12Q1/42 , C12Q1/68
CPC分类号： C12Q1/42 , C12N9/14 , C12P19/34 , Y10T436/143333
摘要： The present invention relates to the discovery of RNA 5' polyphosphatase enzymes not previously described in the art, methods for discovery of said enzymes, compositions of said enzymes, methods for making said enzymes, and various methods and kits for using said enzymes for biomedical research, for human and non-human diagnostics, for production of therapeutic products, and for other applications. In particular, some embodiments provide compositions, kits and methods for employing RNA polyphosphatases for isolation, purification, production, and assay of capped RNA using a biological sample or a sample from an in vitro capping reaction wherein the sample also contains RNA that is not capped. Other embodiments provide compositions, kits and methods wherein RNA polyphosphatases comprise signal-amplifying enzymes for analyte-specific assays.
摘要翻译：本发明涉及本领域先前未描述的RNA 5'多磷酸酶的发现，所述酶的发现方法，所述酶的组合物，所述酶的制备方法以及使用所述酶进行生物医学研究的各种方法和试剂盒，用于人和非人诊断，用于生产治疗产品和其他应用。具体地，一些实施方案提供了使用RNA多磷酸酶用于使用生物样品或来自体外封端反应的样品分离，纯化，生产和测定加帽RNA的组合物，试剂盒和方法，其中所述样品还含有未被封端的RNA 。其他实施方案提供组合物，试剂盒和方法，其中RNA多磷酸酶包含用于分析物特异性测定的信号放大酶。

5. 发明申请

WO2009135214A3 RNA POLYPHOSPHATASE COMPOSITIONS, KITS, AND USES THEREOF 审中-公开
标题翻译： RNA多磷酸酯组合物，胶囊及其用途
公开(公告)号：WO2009135214A3
公开(公告)日：2010-03-11
申请号：PCT/US2009042729
申请日：2009-05-04
申请人： JENDRISAK JEROME J , VAIDYANATHAN RAMESH , MEIS RONALD , EPICT TECHNOLOGIES CORP
发明人： JENDRISAK JEROME J , VAIDYANATHAN RAMESH , MEIS RONALD
IPC分类号： C12N9/14 , C12Q1/42 , C12Q1/68
CPC分类号： C12Q1/42 , C12N9/14 , C12P19/34 , Y10T436/143333
摘要： The present invention relates to the discovery of RNA 5' polyphosphatase enzymes not previously described in the art, methods for discovery of said enzymes, compositions of said enzymes, methods for making said enzymes, and various methods and kits for using said enzymes for biomedical research, for human and non-human diagnostics, for production of therapeutic products, and for other applications. In particular, some embodiments provide compositions, kits and methods for employing RNA polyphosphatases for isolation, purification, production, and assay of capped RNA using a biological sample or a sample from an in vitro capping reaction wherein the sample also contains RNA that is not capped. Other embodiments provide compositions, kits and methods wherein RNA polyphosphatases comprise signal-amplifying enzymes for analyte-specific assays.
摘要翻译：本发明涉及本领域先前未描述的RNA 5'多磷酸酶的发现，所述酶的发现方法，所述酶的组合物，所述酶的制备方法以及使用所述酶进行生物医学研究的各种方法和试剂盒，用于人和非人诊断，用于生产治疗产品和其他应用。具体地，一些实施方案提供了使用RNA多磷酸酶用于使用生物样品或来自体外封端反应的样品分离，纯化，生产和测定加帽RNA的组合物，试剂盒和方法，其中所述样品还含有未被封端的RNA 。其他实施方案提供组合物，试剂盒和方法，其中RNA多磷酸酶包含用于分析物特异性测定的信号放大酶。

6. 发明申请

WO2004058989A2 TARGET-DEPENDENT TRANSCRIPTION 审中-公开
标题翻译：目标相关转录
公开(公告)号：WO2004058989A2
公开(公告)日：2004-07-15
申请号：PCT/US2003/040912
申请日：2003-12-23
申请人： EPICENTRE TECHNOLOGIES , DAHL, Gary, A. , JENDRISAK, Jerome, J. , MEIS, Judy, E. , VAIDYANATHAN, Ramesh
IPC分类号： C12Q
CPC分类号： C12Q1/6862 , C12Q1/682 , C12Q1/6865 , C12Q2600/156 , C12Q2531/137 , C12Q2531/125 , C12Q2525/161 , C12Q2525/143
摘要： The present invention comprises novel methods, compositions and kits comprising monopartite or bipartite target probes and an RNA polymerase to detect and quantify analytes comprising one or multiple target nucleic acid sequences, including target sequences that differ by as little as one nucleotide, or to detect and quantify non-nucleic acid analytes by detecting a target sequence tag that is joined to an analyte-binding substance. The method, called "targetdependent transcription," consists of an annealing process, a DNA ligation process, a transcription process, and a detection process. The invention also comprises novel methods, compositions and kits for amplifying RNA, including strand-displacement reverse transcription and rolling circle reverse transcription.
摘要翻译：本发明包括新颖的方法，组合物和试剂盒，其包括单分子或双分子靶标探针和RNA聚合酶，用于检测和定量包含一个或多个靶核酸序列的分析物，包括不同于一个核苷酸的靶序列，或检测和通过检测连接到分析物结合物质的靶序列标签来定量非核酸分析物。称为“靶依赖性转录”的方法由退火过程，DNA连接过程，转录过程和检测过程组成。本发明还包括用于扩增RNA的新方法，组合物和试剂盒，包括链 - 位移逆转录和滚环反转录。

7. 发明申请

WO2011056866A2 METHODS AND KITS FOR 3'-END-TAGGING OF RNA 审中-公开
标题翻译： RNA的3'末端标记的方法和工具
公开(公告)号：WO2011056866A2
公开(公告)日：2011-05-12
申请号：PCT/US2010055292
申请日：2010-11-03
申请人： EPICT TECHNOLOGIES CORP , VAIDYANATHAN RAMESH , KUERSTEN SCOTT , DOYLE KEN
发明人： VAIDYANATHAN RAMESH , KUERSTEN SCOTT , DOYLE KEN
IPC分类号： C12Q1/68 , C12N15/10 , C12N15/11
CPC分类号： C12Q1/6806 , C12N15/10 , C12N15/1096 , C12N15/66 , C12P19/34
摘要： The present innovation provides methods and kits that enable rapid and efficient dual end-tagging of RNA to prepare libraries for analysis by applications such as next-generation RNA sequencing, qPCR, microarray analysis, or cloning. The methods do not require time-consuming and inefficient gel-purification steps that are common to methods known in the art. In addition, the present invention provides methods and kits for rapid, high-throughput enzymatic preparation of 5'-activated, 3'-blocked DNA oligonucleotides from standard, single-stranded DNA oligonucleotides.
摘要翻译：本创新提供了方法和试剂盒，可以快速有效的双端标记RNA，以制备用于分析应用的文库，如下一代RNA测序，qPCR，微阵列分析或克隆。该方法不需要本领域已知方法常见的耗时和低效的凝胶纯化步骤。此外，本发明提供了用于从标准的单链DNA寡核苷酸快速，高通量酶制备5'-激活的，3'-封闭的DNA寡核苷酸的方法和试剂盒。

8. 发明申请

WO2009135212A2 SELECTIVE 5' LIGATION TAGGING OF RNA 审中-公开
标题翻译：选择性5'RNA结合标记
公开(公告)号：WO2009135212A2
公开(公告)日：2009-11-05
申请号：PCT/US2009042723
申请日：2009-05-04
申请人： JENDRISAK JEROME J , VAIDYANATHAN RAMESH , DAHL GARY , EPICT TECHNOLOGIES CORP
发明人： JENDRISAK JEROME J , VAIDYANATHAN RAMESH , DAHL GARY
IPC分类号： C12N15/10 , C07H21/02 , C12N15/11 , C12Q1/68
CPC分类号： C12Q1/6806 , C12N15/1096 , C12Q1/6855 , C12Q2525/207 , C12Q2525/125 , C12Q2521/525
摘要： The present invention provides novel compositions, kits and methods employing RNA 5' polyphosphatases, RNA 5' monophosphatases, capping enzymes, decapping enzymes, nucleic acid pyrophosphatases and RNA ligases, as well as other enzymes, for selective 5' ligation tagging of desired classes of RNA molecules that differ with respect to particular chemical moieties on their 5' ends. The 5'tagged RNA molecules can be used for synthesis of tagged first-stand cDNA, double-stranded cDNA, and sense or antisense RNA for a variety of uses.
摘要翻译：本发明提供了使用RNA 5'多磷酸酶，RNA 5'单磷酸酶，加帽酶，脱帽酶，核酸焦磷酸酶和RNA连接酶以及其他酶的新型组合物，试剂盒和方法，用于选择性5'连接标记所需类别的 RNA分子就其5'端的特定化学部分而言不同。 5'标签的RNA分子可用于各种用途的标记的第一站cDNA，双链cDNA和有义或反义RNA的合成。

9. 发明申请

WO2009026148A1 SELECTIVE 5' LIGATION TAGGING OF RNA 审中-公开
标题翻译： RNA的选择性5'标记
公开(公告)号：WO2009026148A1
公开(公告)日：2009-02-26
申请号：PCT/US2008/073305
申请日：2008-08-15
申请人： EPICENTRE TECHNOLOGIES CORPORATION , VAIDYANATHAN, Ramesh , JENDRISAK, Jerome, J.
发明人： VAIDYANATHAN, Ramesh , JENDRISAK, Jerome, J.
IPC分类号： C12P19/34
CPC分类号： C12P19/34
摘要： The present invention provides compositions, kits and methods for selective enrichment, isolation, purification, production, tagging, cloning, amplification, detection, quantification, characterization, and assay of nucleic acid molecules that either have a monophosphate group, a polyphosphate group, or a cap nucleotide on their 5' terminus. The resulting 5'-monophosphorylated RNA molecules generated using the method are 5' ligation tagged by ligating an RNA acceptor oligonucleotide to their 5' ends using RNA ligase. The tagged RNA can be used for full-length-selected synthesis of first-stand cDNA, or double-stranded cDNA for a variety of uses and applications.
摘要翻译：本发明提供了选择性富集，分离，纯化，生产，标记，克隆，扩增，检测，定量，鉴定和测定具有单磷酸基团，多磷酸基团或多磷酸酯基团的核酸分子的组合物，试剂盒和方法帽核苷酸在其5'末端。使用该方法产生的所得5'-单磷酸化RNA分子通过使用RNA连接酶将RNA受体寡核苷酸与其5'末端连接来进行5'连接标记。标记的RNA可以用于全长选择的第一台cDNA合成，或用于多种用途和应用的双链cDNA。

10. 发明申请

WO2004058989A3 TARGET-DEPENDENT TRANSCRIPTION 审中-公开
标题翻译：目标相关转录
公开(公告)号：WO2004058989A3
公开(公告)日：2007-10-18
申请号：PCT/US0340912
申请日：2003-12-23
申请人： EPICT TECHNOLOGIES , DAHL GARY A , JENDRISAK JEROME J , MEIS JUDY E , VAIDYANATHAN RAMESH
IPC分类号： C12Q1/68 , C07H21/04 , C12N9/00 , C12P19/34 , C12Q20060101 , C12Q1/00 , G01N20060101
CPC分类号： C12Q1/6862 , C12Q1/682 , C12Q1/6865 , C12Q2600/156 , C12Q2531/137 , C12Q2531/125 , C12Q2525/161 , C12Q2525/143
摘要： The present invention comprises novel methods, compositions and kits comprising monopartite or bipartite target probes and an RNA polymerase to detect and quantify analytes comprising one or multiple target nucleic acid sequences, including target sequences that differ by as little as one nucleotide, or to detect and quantify non-nucleic acid analytes by detecting a target sequence tag that is joined to an analyte-binding substance. The method, called "targetdependent transcription," consists of an annealing process, a DNA ligation process, a transcription process, and a detection process. The invention also comprises novel methods, compositions and kits for amplifying RNA, including strand-displacement reverse transcription and rolling circle reverse transcription.
摘要翻译：本发明包括新颖的方法，组合物和试剂盒，其包括单分子或双分子靶标探针和RNA聚合酶，用于检测和定量包含一个或多个靶核酸序列的分析物，包括不同于一个核苷酸的靶序列，或检测和通过检测连接到分析物结合物质的靶序列标签来定量非核酸分析物。称为“靶依赖性转录”的方法由退火过程，DNA连接过程，转录过程和检测过程组成。本发明还包括用于扩增RNA的新方法，组合物和试剂盒，包括链 - 位移逆转录和滚环反转录。

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