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1. 发明申请

US20070054311A1 Amplification and analysis of whole genome and whole transcriptome libraries generated by a DNA polymerization process 审中-公开
标题翻译：通过DNA聚合过程产生的全基因组和整个转录组文库的扩增和分析
公开(公告)号：US20070054311A1
公开(公告)日：2007-03-08
申请号：US11593625
申请日：2006-11-06
申请人： Emmanuel Kamberov , Tong Sun , Eric Bruening , Jonathon Pinter , Irina Sleptsova , Takao Kurihara , Vladimir Makarov
发明人： Emmanuel Kamberov , Tong Sun , Eric Bruening , Jonathon Pinter , Irina Sleptsova , Takao Kurihara , Vladimir Makarov
IPC分类号： C12Q1/68 , C12P19/34
CPC分类号： C12N15/1093 , C12N15/10 , C12Q1/686 , C40B40/06 , C40B50/06 , C12Q2525/161 , C12Q2525/179 , C12Q2525/15
摘要： The present invention regards a variety of methods and compositions for whole genome amplification and whole transcriptome amplification. In a particular aspect of the present invention, there is a method of amplifying a genome comprising a library generation step followed by a library amplification step. In specific embodiments, the library generating step utilizes specific primer mixtures and a DNA polymerase, wherein the specific primer mixtures are designed to eliminate ability to self-hybridize and/or hybridize to other primers within a mixture but efficiently and frequently prime nucleic acid templates.
摘要翻译：本发明涉及用于全基因组扩增和全转录组扩增的多种方法和组合物。在本发明的特定方面，存在扩增包含文库产生步骤之后是文库扩增步骤的基因组的方法。在具体实施方案中，文库产生步骤使用特异性引物混合物和DNA聚合酶，其中特异性引物混合物被设计为消除混合物内其它引物自我杂交和/或杂交的能力，但有效且频繁引发核酸模板。

2. 发明申请

US20050032104A1 Genome walking by selective amplification of nick-translate DNA library and amplification from complex mixtures of templates 审中-公开
标题翻译：通过选择性扩增切口翻译DNA文库并从模板的复杂混合物中扩增的基因组
公开(公告)号：US20050032104A1
公开(公告)日：2005-02-10
申请号：US10909516
申请日：2004-08-02
申请人： Vladimir Makarov , Emmanuel Kamberov , Irina Sleptsova
发明人： Vladimir Makarov , Emmanuel Kamberov , Irina Sleptsova
IPC分类号： C12Q1/68 , C12P19/34
CPC分类号： C12Q1/6869 , C12Q1/6876
摘要： Improved methods and reagents for chromosome walking of nucleic acid are discussed herein. A library of amplifiable nick translation molecules is generated, and a chromosome walk is initiated from a known sequence in the nucleic acid by producing at least one nick translate molecule, sequencing part of the nick translate molecule, and producing a second nick translate molecule by initiating the primer extension from the region of the obtained sequence of the prior nick translate molecule.
摘要翻译：本文讨论了用于核酸染色体行走的改进方法和试剂。产生可扩增切口平移分子的文库，通过产生至少一个切口平移分子，切割平移分子的测序部分，并通过引发产生第二切口平移分子，从核酸中的已知序列引发染色体步态来自所获得的先前切口平移分子序列的区域的引物延伸。

3. 发明申请

US20050202490A1 Methods and compositions for generating and amplifying DNA libraries for sensitive detection and analysis of DNA methylation 有权
标题翻译：用于产生和扩增DNA文库以灵敏检测和分析DNA甲基化的方法和组合物
公开(公告)号：US20050202490A1
公开(公告)日：2005-09-15
申请号：US11071864
申请日：2005-03-03
申请人： Vladimir Makarov , Emmanuel Kamberov , Tong Sun , Jonathon Pinter , Brendan Tarrier , Eric Bruening , Takao Kurihara , Tim Tesmer , Joseph M'Mwirichia
发明人： Vladimir Makarov , Emmanuel Kamberov , Tong Sun , Jonathon Pinter , Brendan Tarrier , Eric Bruening , Takao Kurihara , Tim Tesmer , Joseph M'Mwirichia
IPC分类号： C12N15/10 , C12P19/34 , C12Q1/68
CPC分类号： C12Q1/6869 , C12N15/1072 , C12Q1/6827 , C12Q1/6855 , C12Q2525/301 , C12Q2525/191 , C12Q2521/331 , C12Q2523/125
摘要： The present invention regards a variety of methods and compositions for obtaining epigenetic information, such as DNA methylation patterns, through the preparation, amplification and analysis of Methylome libraries. In several aspects of the present invention, there are methods based on methylation-dependent enrichment or depletion of genomic DNA isolated from cellular and cell-free sources. In additional embodiments, there are methods and compositions for single-step high throughput preparations of Methylome libraries.
摘要翻译：本发明涉及通过Methylome文库的制备，扩增和分析来获得表观遗传信息的各种方法和组合物，例如DNA甲基化模式。在本发明的几个方面，存在基于从细胞和无细胞来源分离的基因组DNA的甲基化依赖性富集或消耗的方法。在另外的实施方案中，存在Methylome文库的单步高通量制剂的方法和组合物。

4. 发明申请

US20070031857A1 Compositions and methods for processing and amplification of DNA, including using multiple enzymes in a single reaction 审中-公开
标题翻译：用于处理和扩增DNA的组合物和方法，包括在单次反应中使用多种酶
公开(公告)号：US20070031857A1
公开(公告)日：2007-02-08
申请号：US11366222
申请日：2006-03-02
申请人： Vladimir Makarov , Emmanuel Kamberov , Brendan Tarrier
发明人： Vladimir Makarov , Emmanuel Kamberov , Brendan Tarrier
IPC分类号： C12Q1/68 , C12P19/34
CPC分类号： C12Q1/6853 , C12N15/1068 , C12P19/34 , C12Q1/6855 , C12Q1/686 , C12Q1/6865 , C12Q2525/301 , C12Q2525/119 , C12Q2521/301 , C12Q2525/191 , C12Q2521/501
摘要： The present invention concerns preparation of DNA molecules, such as a library, using a stem-loop oligonucleotide. In particular embodiments, the invention employs a single reaction mixture and conditions. In particular, at least part of the inverted palindrome is removed during the preparation of the molecules to facilitate amplification of the molecules. Thus, in specific embodiments, the DNA molecules are suitable for amplification and are not hindered by the presence of the palindrome.
摘要翻译：本发明涉及使用茎环寡核苷酸制备DNA分子，例如文库。在具体实施方案中，本发明采用单一反应混合物和条件。特别地，在制备分子期间，至少部分反向回文被去除以促进分子的扩增。因此，在具体实施方案中，DNA分子适合于扩增，并且不受回文的存在的阻碍。

5. 发明申请

US20070031858A1 Isolation of CpG islands by thermal segregation and enzymatic selection-amplification method 有权
标题翻译：通过热分离和酶选扩增方法分离CpG岛
公开(公告)号：US20070031858A1
公开(公告)日：2007-02-08
申请号：US11367046
申请日：2006-03-02
申请人： Vladimir Makarov , Emmanuel Kamberov , Brendan Tarrier
发明人： Vladimir Makarov , Emmanuel Kamberov , Brendan Tarrier
IPC分类号： C12Q1/68 , C12P19/34
CPC分类号： C12N15/1065 , C12N15/1003 , C12N15/1093 , C12Q1/6846 , C12Q1/6886 , C12Q2537/164 , C12Q2527/107
摘要： The present invention concerns isolation, library preparation and selective amplification from a compositionally heterogeneous pool of DNA fragments of a fraction of molecules, such as those originating from promoter CpG islands and characterized by a high GC content. In particular, the process utilizes a heat-induced segregation of DNA molecules into GC-poor, single-stranded molecule fractions and GC-rich, double-stranded molecule fractions, with subsequent enzymatic conversion of the GC-rich, double-stranded DNA molecules into a library, and, optionally, amplification. In specific embodiments, the isolation process is used to generate promoter-enriched genomic and methylome libraries for research and diagnostic applications, for example.
摘要翻译：本发明涉及分离，文库制备和从部分分子的DNA片段的组成不均一聚集体（例如源自启动子CpG岛的那些DNA片段）的选择性扩增，并且特征在于高GC含量。特别地，该方法利用热分解DNA分子到GC-不良的单链分子级分和富含GC的双链分子级分，随后富含GC的双链DNA分子的酶转化进入文库，可选地，扩增。在具体实施方案中，例如，分离过程用于产生用于研究和诊断应用的富含启动子的基因组和甲基化文库。

6. 发明授权

US08889350B2 Methods and compositions for isolating polynucleotides 有权
标题翻译：用于分离多核苷酸的方法和组合物
公开(公告)号：US08889350B2
公开(公告)日：2014-11-18
申请号：US13073781
申请日：2011-03-28
申请人： Vladimir Makarov
发明人： Vladimir Makarov
IPC分类号： C12Q1/68 , C12P19/34 , C07H21/02 , C07H21/04 , C07H21/00
CPC分类号： C12Q1/6806 , C12Q1/6813 , C12Q1/6816 , C12Q1/682 , C12Q1/6827 , C12Q1/683 , C12Q1/6844 , C12Q1/6846 , C12Q1/686 , C12Q1/6862 , C12Q1/6869 , C12Q1/6876 , C12Q2525/119 , C12Q2525/151 , C12Q2525/161 , C12Q2563/149 , C12Q2531/125 , C12Q2563/131 , C12Q2537/159
摘要： Methods of isolating target double-stranded polynucleotides with internal single-stranded regions are provided. Compositions and kits comprising double-stranded polynucleotides with internal single-stranded regions are also provided.
摘要翻译：提供了用内部单链区域分离靶双链多核苷酸的方法。还提供了包含具有内部单链区域的双链多核苷酸的组合物和试剂盒。

7. 发明授权

US08555267B2 Performing register allocation of program variables based on priority spills and assignments 有权
标题翻译：基于优先级溢出和分配执行程序变量的寄存器分配
公开(公告)号：US08555267B2
公开(公告)日：2013-10-08
申请号：US12717042
申请日：2010-03-03
申请人： Vladimir Makarov
发明人： Vladimir Makarov
IPC分类号： G06F9/45
摘要： A mechanism for performing register allocation based on priority spills and assignments is disclosed. A method of embodiments of the invention includes repetitively detecting fat points during a compilation process of a software program running on a virtual machine of a computer system, each fat point representing a program point having a high register pressure, the high register pressure occurs when a number of live program variables of the software program living at a given program point of the software program is greater than a number of available processor registers of the computer system. The method further includes choosing a fat point with a highest register pressure, selecting a live program variable having a lowest priority at the chosen fat point, and spilling the lowest priority live program variable to memory of the computer system.
摘要翻译：公开了一种基于优先溢出和分配进行寄存器分配的机制。本发明实施例的方法包括在计算机系统的虚拟机上运行的软件程序的编译过程中重复检测脂肪点，每个脂肪点表示具有高登记压力的程序点，当高生活在软件程序的给定程序点的软件程序的实际程序变量的数量大于计算机系统的可用处理器寄存器的数量。该方法还包括选择具有最高注册压力的脂肪点，选择在所选脂肪点具有最低优先级的实况节目变量，以及将最低优先级的实时节目变量溢出到计算机系统的存储器。

8. 发明授权

US08491964B1 Diamond nucleation using polyethene 失效
标题翻译：使用聚乙烯的金刚石成核
公开(公告)号：US08491964B1
公开(公告)日：2013-07-23
申请号：US13070214
申请日：2011-03-23
申请人： Gerardo Morell , Vladimir Makarov , Deepak Varshney , Brad Weiner
发明人： Gerardo Morell , Vladimir Makarov , Deepak Varshney , Brad Weiner
IPC分类号： C23C16/27
CPC分类号： C23C16/272
摘要： The invention presents a simple, non-destructive and non-abrasive method of diamond nucleation using polyethene. It particularly describes the nucleation of diamond on an electrically viable substrate surface using polyethene via chemical vapor deposition (CVD) technique in a gaseous environment.
摘要翻译：本发明提出了使用聚乙烯的金刚石成核的简单的，非破坏性和非研磨性的方法。它特别描述了在气体环境中通过化学气相沉积（CVD）技术使用聚乙烯在电存活的基底表面上金刚石的成核。

9. 发明申请

US20110129832A1 Polynucleotide Primers and Probes 审中-公开
标题翻译：多核苷酸引物和探针
公开(公告)号：US20110129832A1
公开(公告)日：2011-06-02
申请号：US12913742
申请日：2010-10-27
申请人： Vladimir Makarov , Sergey V. Chupreta
发明人： Vladimir Makarov , Sergey V. Chupreta
IPC分类号： C12Q1/68 , C12P19/34
CPC分类号： C12Q1/6876 , C12Q1/6818 , C12Q1/6832 , C12Q2525/161 , C12Q2537/125 , C12Q2537/1373 , C12Q2537/163 , C12Q2525/121 , C12Q2525/301
摘要： The present invention provides a novel technology that involves improved primer design. These primer pairs have a wide range of applications and provide high sensitivity and specificity.
摘要翻译：本发明提供一种涉及改进底漆设计的新技术。这些引物对具有广泛的应用范围，提供高灵敏度和特异性。

10. 发明申请

US20100083407A1 NUCLEOTIDE SEQUENCES AND POLYPEPTIDES ENCODED THEREBY USEFUL FOR MODIFYING PLANT CHARACTERISTICS 审中-公开
公开(公告)号：US20100083407A1
公开(公告)日：2010-04-01
申请号：US12435281
申请日：2009-05-04
申请人： Kenneth A. Feldmann , Vyacheslav Brover , Vladimir Makarov , Timothy Swaller
发明人： Kenneth A. Feldmann , Vyacheslav Brover , Vladimir Makarov , Timothy Swaller
IPC分类号： C12N15/82 , C07H21/04 , C12N5/10 , C07K14/415 , A01H5/00 , C12Q1/68
CPC分类号： C07K14/415
摘要： Isolated polynucleotides and polypeptides encoded thereby are described, together with the use of those products for making transgenic plants.

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