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1. 发明专利

AU2005295351A1 Methods for assembly of high fidelity synthetic polynucleotides 未知
公开(公告)号：AU2005295351A1
公开(公告)日：2006-04-27
申请号：AU2005295351
申请日：2005-10-18
申请人： CODON DEVICES INC
发明人： AFEYAN NOUBAR , JACOBSON JOSEPH , CHAPMAN BRAD ALAN , BAYNES BRIAN M , CHURCH GEORGE , STRACK-LOGUE BETTINA , NESMITH KENNETH GABRIEL
IPC分类号： C12Q1/68
摘要： Disclosed are methods of manufacturing synthetic DNAs, that is, DNAs made at least in significant part by chemical synthesis of nucleic acid polymers. Also provided are methods for assembling plural DNAs in the same pool by multiplexed assembly of synthetic oligonucleotides. In exemplary embodiments, the methods involve pre-amplification of one or more oligonucleotides using "universal" primers, reduction of the error rate in oligonucleotide and/or nucleic acid products, and sequence optimization and oligonucleotides design. Also provided are low-purity arrays of nucleic acids and methods for assembling nucleic acids using oligonucleotides obtained from low-purity arrays.

2. 发明专利

CA2584984A1 METHODS FOR ASSEMBLY OF HIGH FIDELITY SYNTHETIC POLYNUCLEOTIDES 未知
公开(公告)号：CA2584984A1
公开(公告)日：2006-04-27
申请号：CA2584984
申请日：2005-10-18
申请人： CODON DEVICES INC
发明人： JACOBSON JOSEPH , BAYNES BRIAN M , STRACK-LOGUE BETTINA , CHAPMAN BRAD ALAN , AFEYAN NOUBAR , CHURCH GEORGE , NESMITH KENNETH GABRIEL
IPC分类号： C40B40/06 , C12N15/10 , C12P19/34 , C12Q1/68 , C40B50/06 , C40B50/14
摘要： Disclosed are methods of manufacturing synthetic DNAs, that is, DNAs made at least in significant part by chemical synthesis of nucleic acid polymers. Also provided are methods for assembling plural DNAs in the same pool by multiplexed assembly of synthetic oligonucleotides. In exemplary embodiments, the methods involve pre-amplification of one or more oligonucleotides using "universal" primers, reduction of the error rate in oligonucleotide and/or nucleic acid products, and sequence optimization and oligonucleotides design. Also provided are low-purity arrays of nucleic acids and methods for assembling nucleic acids using oligonucleotides obtained from low-purity arrays.

3. 发明专利

CA2615057A1 COMPOSITIONS AND METHODS FOR BIOCATALYTIC ENGINEERING 未知
公开(公告)号：CA2615057A1
公开(公告)日：2007-01-18
申请号：CA2615057
申请日：2006-07-12
申请人： CODON DEVICES INC
发明人： BAYNES BRIAN M
IPC分类号： C12N1/00

4. 发明专利

AU2006267039A1 Compositions and methods for biocatalytic engineering 未知
公开(公告)号：AU2006267039A1
公开(公告)日：2007-01-18
申请号：AU2006267039
申请日：2006-07-12
申请人： CODON DEVICES INC
发明人： BAYNES BRIAN M
IPC分类号： C12N1/00
摘要： Provided herein are compositions and methods for metabolic pathway engineering. The methods involve combining two or more cells expressing potential pathway proteins extracellularly in the presence of reactants. Also provided are libraries of cells expressing a plurality of pathway components and/or a plurality of variants of a given pathway component extracellularly.

5. 发明专利

CA2594832A1 COMPOSITIONS AND METHODS FOR PROTEIN DESIGN 未知
公开(公告)号：CA2594832A1
公开(公告)日：2006-07-20
申请号：CA2594832
申请日：2006-01-13
申请人： CODON DEVICES INC
发明人： CHURCH GEORGE , BAYNES BRIAN
IPC分类号： C12N15/10 , C12Q1/68
摘要： In certain aspects the present invention provides methods and compositions related to rational protein design.

6. 发明专利

AU2006204697A1 Compositions and methods for protein design 未知
公开(公告)号：AU2006204697A1
公开(公告)日：2006-07-20
申请号：AU2006204697
申请日：2006-01-13
申请人： CODON DEVICES INC
发明人： CHURCH GEORGE , BAYNES BRIAN
IPC分类号： C12N15/10 , C12Q1/68
摘要： In certain aspects the present invention provides methods and compositions related to rational protein design.

7. 发明申请

WO2009149218A2 NOVEL PROTEINS AND METHODS OF DESIGNING AND USING SAME 审中-公开
标题翻译：新型蛋白质及其设计和使用方法
公开(公告)号：WO2009149218A2
公开(公告)日：2009-12-10
申请号：PCT/US2009/046185
申请日：2009-06-03
申请人： CODON DEVICES, INC. , BAYNES, Brian , LIPOVSEK, Dasa , LIPPOW, Shaun
发明人： BAYNES, Brian , LIPOVSEK, Dasa , LIPPOW, Shaun
IPC分类号： C12N15/10 , G06F19/00
CPC分类号： C12N15/1093 , C40B30/02 , G06F19/16 , G06F19/18
摘要： Aspects of the invention relate to variant proteins and methods for designing and using the same. In some embodiments, the invention relates to methods for determining a functional variant of a protein that is restricted by one or more known legal rights, such as patent rights. Functional variants according to this invention are free of such restrictions.
摘要翻译：本发明的方面涉及变体蛋白及其设计和使用的方法。在一些实施方案中，本发明涉及用于确定由一种或多种已知合法权利（例如专利权）限制的蛋白质的功能性变体的方法。根据本发明的功能变体没有这样的限制。

8. 发明申请

WO2007123742A3 METHODS AND COMPOSITIONS FOR INCREASING THE FIDELITY OF MULTIPLEX NUCLEIC ACID ASSEMBLY 审中-公开
标题翻译：用于增加多重核酸组合物的浓度的方法和组合物
公开(公告)号：WO2007123742A3
公开(公告)日：2008-02-28
申请号：PCT/US2007007988
申请日：2007-03-30
申请人： CODON DEVICES INC , BAYNES BRIAN M , NESMITH KENNETH G , MARSISCHKY GERALD THOMAS , CAMACHO JENNIFER A
发明人： BAYNES BRIAN M , NESMITH KENNETH G , MARSISCHKY GERALD THOMAS , CAMACHO JENNIFER A
IPC分类号： C12Q1/68
CPC分类号： C12N15/64 , C12N15/10 , C12N15/66 , C12Q1/686 , C12Q2521/507
摘要： Certain aspects of the present invention provide methods for increasing the fidelity of nucleic acid assembly reactions. Fidelity-optimized conditions may be used in certain embodiments. Nucleic acid binding proteins and/or recombinases (e.g., heat stable variants) may be used in some embodiments. A RecA protein (e.g., a heat stable RecA) may be included in some assembly reactions. Aspects of the invention also provide related kits, compositions, devices, and systems to increase the fidelity of multiplex nucleic acid assembly reaction.
摘要翻译：本发明的某些方面提供了增加核酸装配反应的保真度的方法。在某些实施例中可以使用保真度优化的条件。在一些实施方案中可以使用核酸结合蛋白和/或重组酶（例如热稳定变体）。 RecA蛋白（例如，热稳定的RecA）可以包括在一些装配反应中。本发明的方面还提供了相关的试剂盒，组合物，装置和系统，以增加多重核酸装配反应的保真度。

9. 发明申请

WO2007136736A2 METHODS FOR NUCLEIC ACID SORTING AND SYNTHESIS 审中-公开
标题翻译：用于核酸分选和合成的方法
公开(公告)号：WO2007136736A2
公开(公告)日：2007-11-29
申请号：PCT/US2007/011886
申请日：2007-05-18
申请人： CODON DEVICES, INC. , CHURCH, George , CERRINA, Francisco , BAYNES, Brian, M. , PITCHER, Edmund, R.
发明人： CHURCH, George , CERRINA, Francisco , BAYNES, Brian, M. , PITCHER, Edmund, R.
IPC分类号： C12Q1/68
CPC分类号： C12Q1/6874 , C12Q2537/143 , C12Q2531/113
摘要： Methods of sorting oligonucleotide sequences are provided. The methods include determining the sequences of oligonucleotides and selectively isolating one or more that are determined to have the desired sequence. Methods of nucleic acid preparation are also disclosed.
摘要翻译：提供了分选寡核苷酸序列的方法。所述方法包括确定寡核苷酸的序列并选择性分离被确定为具有所需序列的一个或多个。还公开了核酸制备方法。

10. 发明申请

WO2007087347A2 METHODS, SYSTEMS, AND APPARATUS FOR FACILITATING THE DESIGN OF MOLECULAR CONSTRUCTS 审中-公开
标题翻译：用于促进分子构建体设计的方法，系统和装置
公开(公告)号：WO2007087347A2
公开(公告)日：2007-08-02
申请号：PCT/US2007/001888
申请日：2007-01-24
申请人： CODON DEVICES, INC. , JACOBSON, Joseph, M. , ENDY, Drew , PITCHER, Edmund, R.
发明人： JACOBSON, Joseph, M. , ENDY, Drew , PITCHER, Edmund, R.
CPC分类号： G06Q50/22 , G06F19/18 , G06F19/28
摘要： A system and method for aiding in the design of molecular constructs is provided. A feature set associated with a molecular building block in a construct may be determined, wherein the feature set may comprise data indicative of third party rights that restrict use of the molecular segment or the lack of such rights. The method may include steps of defining a molecular structure for use in the construct; searching a database including a plurality of molecular structures and a plurality of rights, each right of the plurality of rights associated with each of the plurality of molecular structures; and displaying rights associated with the defined molecular structures in response to the search of said database. The system may include a library aggregating a plurality of intellectual property rights relating to fabricating biological constructs; a licensing module licensing the intellectual property rights required to make the specific construct for a fee; an accounts receivable module receiving the fee from a potential maker of the specific construct; and an accounts payable module distributing remuneration to the holders of the intellectual property rights required to make the specific construct.
摘要翻译：提供了用于帮助设计分子构建体的系统和方法。可以确定与构建体中的分子构建块相关联的特征集，其中该特征集可以包括指示限制分子段的使用或缺乏这种权利的第三方权利的数据。该方法可以包括定义用于构建体中的分子结构的步骤; 搜索包括多个分子结构和多个权利的数据库，与所述多个分子结构中的每一个相关的所述多个权利中的每一个权利; 以及响应于对所述数据库的搜索而显示与所定义的分子结构相关联的权利。该系统可以包括集合涉及制造生物构建体的多个知识产权的库; 一个授权模块，授权收取特定结构所需的知识产权; 应收账款模块，从特定建筑的潜在制造商处收取费用; 以及向制作特定结构所需的知识产权持有人分配报酬的应付账款模块。

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