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1. 发明申请

US20060134638A1 Error reduction in automated gene synthesis 审中-公开
标题翻译：自动基因合成中的错误减少
公开(公告)号：US20060134638A1
公开(公告)日：2006-06-22
申请号：US10816459
申请日：2004-04-01
申请人： John Mulligan , John Tabone
发明人： John Mulligan , John Tabone
IPC分类号： C12Q1/68 , C12P19/34
CPC分类号： C12Q1/6827 , C12Q1/68 , C12Q1/6806 , C12Q2565/125 , C12Q2537/107 , C12Q2521/514 , C12Q2537/113
摘要： In embodiments of the present invention, methods are provided for removing double-stranded oligonucleotide (e.g., DNA) molecules containing one or more sequence errors, generated during nucleic acid synthesis, from a population of correct oligonucleotide duplexes. In one embodiment, the oligonucleotides are generated enzymatically. Heteroduplex (containing mismatched bases) oligonucleotides may be created by denaturing and reannealing the population of duplexes. The reannealed oligonucleotide duplexes are contacted with a mismatch recognition protein that interacts with (e.g., binds and/or cleaves) the duplexes containing a base pair mismatch. The oligonucleotide heteroduplexes that have interacted with such a protein are separated, simultaneously with contacting or sequentially in a separate step, from homoduplexes. These methods are also used in another embodiment to remove heteroduplex oligonucleotides (e.g., DNA) that are formed directly from chemical nucleic acid synthesis. In other embodiments of the present invention, kits and compositions useful for the methods are provided.
摘要翻译：在本发明的实施方案中，提供了从正确的寡核苷酸双链体的群体中去除含有在核酸合成期间产生的一个或多个序列错误的双链寡核苷酸（例如DNA）分子的方法。在一个实施方案中，寡核苷酸是酶促产生的。异源双链（含有错配的碱基）寡核苷酸可以通过使双链体群变性和再退火来产生。重新退火的寡核苷酸双链体与与包含碱基对失配的双链体相互作用（例如，结合和/或切割）的错配识别蛋白质接触。已经与这种蛋白质相互作用的寡核苷酸异源双链体与同源双链体在单独步骤中接触或顺序地分离。这些方法也用于另一个实施方案中以去除直接从化学核酸合成形成的异源双链寡核苷酸（例如DNA）。在本发明的其它实施方案中，提供了可用于该方法的试剂盒和组合物。

2. 发明申请

US20060057566A1 METHODS AND COMPOSITIONS FOR ANALYZING NUCLEIC ACID MOLECULES UTILIZING SIZING TECHNIQUES 有权
标题翻译：用于分析使用尺寸技术的核酸分子的方法和组合物
公开(公告)号：US20060057566A1
公开(公告)日：2006-03-16
申请号：US10465524
申请日：2003-06-19
申请人： Jeffrey Van Ness , John Tabone , J. Howbert , John Mulligan
发明人： Jeffrey Van Ness , John Tabone , J. Howbert , John Mulligan
IPC分类号： C12Q1/68 , C08G63/91
CPC分类号： C07H21/00 , C07B2200/11 , C12Q1/6825 , C12Q1/6846 , C12Q1/6872 , C40B40/00 , C12Q2563/149 , C12Q2563/113 , C12Q2563/167 , C12Q2525/191
摘要： Tags and linkers specifically designed for a wide variety of nucleic acid reactions are disclosed, which are suitable for a wide variety of nucleic acid reactions wherein separation of nucleic acid molecules based upon size is required.
摘要翻译：公开了针对各种核酸反应专门设计的标签和接头，其适用于各种各样的核酸反应，其中需要基于尺寸分离核酸分子。

3. 发明申请

US20080009613A1 Methods and compositions for determining the sequence of nucleic acid molecules 有权
标题翻译：用于确定核酸分子序列的方法和组合物
公开(公告)号：US20080009613A1
公开(公告)日：2008-01-10
申请号：US11821531
申请日：2007-06-21
申请人： Jeffrey Van Ness , John Tabone , J. Howbert , John Mulligan
发明人： Jeffrey Van Ness , John Tabone , J. Howbert , John Mulligan
IPC分类号： C07C229/00 , C07C205/00 , C07D211/30 , C07H21/04
CPC分类号： C07H21/00 , C07B2200/11 , C07D211/78 , C07H21/04 , C12Q1/6872 , C12Q1/6874 , C40B40/00 , Y10T436/24 , C12Q2565/629 , C12Q2563/167
摘要： Methods and compounds, including compositions therefrom, are provided for determining the sequence of nucleic acid molecules. The methods permit the determination of multiple nucleic acid sequences simultaneously. The compounds are used as tags to generate tagged nucleic acid fragments which are complementary to a selected target nucleic acid molecule. Each tag is correlative with a particular nucleotide and, in a preferred embodiment, is detectable by mass spectrometry. Following separation of the tagged fragments by sequential length, the tags are cleaved from the tagged fragments. In a preferred embodiment, the tags are detected by mass spectrometry and the sequence of the nucleic acid molecule is determined therefrom. The individual steps of the methods can be used in automated format, e.g., by the incorporation into systems.
摘要翻译：提供方法和化合物，包括其组合物，用于确定核酸分子的序列。该方法允许同时测定多个核酸序列。该化合物用作标签以产生与选定的靶核酸分子互补的标记的核酸片段。每个标签与特定核苷酸相关，并且在优选实施方案中可通过质谱法检测。在通过连续长度分离标记的片段之后，从标记的片段切割标签。在优选的实施方案中，通过质谱检测标签，并由此确定核酸分子的序列。方法的各个步骤可以以自动格式使用，例如通过并入系统。

4. 发明申请

US20050069928A1 Methods for synthesis of defined polynucleotides 审中-公开
标题翻译：合成定义的多核苷酸的方法
公开(公告)号：US20050069928A1
公开(公告)日：2005-03-31
申请号：US10911239
申请日：2004-08-03
申请人： Jeffrey Nelson , John Mulligan , John Tabone
发明人： Jeffrey Nelson , John Mulligan , John Tabone
IPC分类号： A61K48/00 , C07H21/04 , C12N15/10 , C12P19/34 , C12Q1/68
CPC分类号： C12N15/1031
摘要： Disclosed is a significantly improved synthetic method of producing a set of mutagenized progeny polynucleotides which contain at least one substituted codon encoding for each of the 20 naturally encoded amino acids or any selected subset thereof. This in turn, similarly provides a method for producing from a parental template polypeptide, a set of mutagenized progeny polypeptides in which all 20 naturally encoded amino acids is represented at each original amino acid position or any selected subset thereof. The methods described herein enable the synthesis of defined, complex mixtures of oligonucleotides, in instances where the incorporation of degenerate bases is impractical. These oligonucleotide mixtures are useful for a variety of applications such as recombination methods, site-saturation mutagenesis, or the like.
摘要翻译：公开了一种显着改进的合成方法，其生产一组诱变的后代多核苷酸，其含有至少一个编码20个天然编码氨基酸或其任何选定子集中的每一个的取代密码子。这反过来类似地提供了从亲本模板多肽，一组诱变的后代多肽产生的方法，其中在每个原始氨基酸位置或其任何选定的亚组中表示所有20个天然编码的氨基酸。在简并碱基的掺入是不实际的情况下，本文描述的方法能够合成寡核苷酸的限定的复杂混合物。这些寡核苷酸混合物可用于各种应用，例如重组方法，位点饱和诱变等。

5. 发明申请

US20130268779A1 SYSTEMS AND METHODS FOR DYNAMIC POWER MANAGEMENT IN A BLADE SERVER 有权
标题翻译：刀片服务器动态电源管理系统与方法
公开(公告)号：US20130268779A1
公开(公告)日：2013-10-10
申请号：US13440829
申请日：2012-04-05
申请人： Robert J. Hueston , Julia D. Harper , John Mulligan , Michael Banatt
发明人： Robert J. Hueston , Julia D. Harper , John Mulligan , Michael Banatt
IPC分类号： G06F1/26
CPC分类号： G06F1/3206
摘要： A system and method of dynamically managing a power supply allocation for each one of the server blades in a blade server includes a blade server system having a blade chassis, multiple server blades coupled to the blade chassis, a power supply system coupled to the blade chassis, a chassis management module coupled to the blade chassis, wherein the blade chassis includes electrical and data communication interconnections between the server blades, the redundant power supply system and the chassis management module. The chassis management module includes computer readable media having program instructions for dynamically managing a power supply allocation for each one of the server blades.
摘要翻译：动态管理刀片服务器中的每个服务器刀片的电源分配的系统和方法包括具有刀片机箱，耦合到刀片机箱的多个服务器刀片的刀片服务器系统，耦合到刀片机箱的电源系统耦合到所述刀片机箱的机箱管理模块，其中所述刀片机箱包括所述服务器刀片之间的电和数据通信互连，所述冗余电源系统和所述机箱管理模块。机箱管理模块包括具有用于动态管理每个服务器刀片的电源分配的程序指令的计算机可读介质。

6. 发明授权

US08351435B2 Method for applying macro-controls onto IP networks using intelligent route indexing 失效
标题翻译：使用智能路由索引将宏控制应用于IP网络的方法
公开(公告)号：US08351435B2
公开(公告)日：2013-01-08
申请号：US13033694
申请日：2011-02-24
申请人： John Mulligan , Han Q. Nguyen , Samir Saad , Jacobus Van Der Merwe , Simon Zelingher
发明人： John Mulligan , Han Q. Nguyen , Samir Saad , Jacobus Van Der Merwe , Simon Zelingher
IPC分类号： H04L12/28
CPC分类号： H04L45/08 , H04L41/0654 , H04L45/02 , H04L45/028 , H04L45/121 , H04L45/123
摘要： Systems and methods are described that manage routing information in an IP network using extensible indexing and use the indexing to control the network. The indexing and associated controls apply to any router within the routing domain.
摘要翻译：描述了使用可扩展索引来管理IP网络中的路由信息的系统和方法，并使用索引来控制网络。索引和相关控件适用于路由域内的任何路由器。

7. 发明申请

US20060029035A1 Method and apparatus for selecting routes for distribution within IP networks 审中-公开
标题翻译：选择IP网络内分发路由的方法和装置
公开(公告)号：US20060029035A1
公开(公告)日：2006-02-09
申请号：US11019845
申请日：2004-12-22
申请人： Christopher Chase , Albert Greenberg , Ali Iloglu , Charles Kalmanek , John Mulligan , Han Nguyen , Jennifer Rexford , Samir Saad , Aman Shaikh , Jacobus Van Der Merwe
发明人： Christopher Chase , Albert Greenberg , Ali Iloglu , Charles Kalmanek , John Mulligan , Han Nguyen , Jennifer Rexford , Samir Saad , Aman Shaikh , Jacobus Van Der Merwe
IPC分类号： H04L12/28
CPC分类号： H04L45/04 , H04L45/02 , H04L45/42
摘要： The invention comprises a method and apparatus for managing route selection in a network. Specifically, the method comprises receiving a set of routes from each of a plurality of routers, filtering each of the sets of routes, and selecting at least one route from each of the filtered sets of routes according to routing information associated with each of the respective routers.
摘要翻译：本发明包括一种用于管理网络中的路由选择的方法和装置。具体地说，该方法包括从多个路由器中的每一个路由器接收一组路由，对路由中的每一个进行过滤，并且根据与各自相应的路由信息相关联的路由信息，从每个过滤路由集合中选择至少一个路由路由器

8. 发明授权

US08361396B2 Automated polymer-synthesis system 有权
标题翻译：自动聚合物合成系统
公开(公告)号：US08361396B2
公开(公告)日：2013-01-29
申请号：US12932334
申请日：2011-02-22
申请人： Hsing-Yeh Parker , John C. Tabone , John Mulligan
发明人： Hsing-Yeh Parker , John C. Tabone , John Mulligan
IPC分类号： B01J19/00 , G01N21/00
CPC分类号： B01J19/0046 , B01J2219/00286 , B01J2219/00315 , B01J2219/0036 , B01J2219/00414 , B01J2219/00423 , B01J2219/00722
摘要： Embodiments of the present invention are directed to automated-polymer-synthesis systems that include discrete reagent-solution-addition, wait-time, and reagent-solution-draining sub-systems which together significantly increase throughput and decrease sub-system idle time. The automated-polymer-synthesis systems that represent embodiments of the present invention additionally include switches at points in which carriers can be received from multiple input paths or output to multiple different output paths. The automated-polymer-synthesis systems that represent embodiments of the present invention generally include an input spur and output spur in addition to a main loop, allowing carriers containing only completed polymers to be removed and new carriers input, so that carriers traverse the automated-polymer-synthesis systems independently from one another.
摘要翻译：本发明的实施方案涉及自动聚合物合成系统，其包括离散的试剂 - 溶液添加，等待时间和试剂 - 溶液 - 排出子系统，这些子系统共同显着增加生产量并减少子系统空闲时间。代表本发明实施例的自动化 - 聚合物合成系统另外包括在多个输入路径上可以接收载波或输出到多个不同输出路径的点处的交换机。代表本发明实施例的自动化 - 聚合物 - 合成系统通常包括除了主回路之外的输入支线和输出支线，允许仅去除已完成的聚合物的载流子和新的载流子输入，使得载流子穿过自动化 - 聚合物合成系统彼此独立。

9. 发明申请

US20100135304A1 Method for applying macro-controls onto IP networks using intelligent route indexing 有权
标题翻译：使用智能路由索引将宏控制应用于IP网络的方法
公开(公告)号：US20100135304A1
公开(公告)日：2010-06-03
申请号：US12315351
申请日：2008-12-02
申请人： John Mulligan , Han Q. Nguyen , Samir Saad , Jacobus Van Der Merwe , Simon Zelingher
发明人： John Mulligan , Han Q. Nguyen , Samir Saad , Jacobus Van Der Merwe , Simon Zelingher
IPC分类号： H04L12/56
CPC分类号： H04L45/08 , H04L41/0654 , H04L45/02 , H04L45/028 , H04L45/121 , H04L45/123
摘要： Systems and methods are described that manage routing information in an IP network using extensible indexing and use the indexing to control the network. The indexing and associated controls apply to any router within the routing domain.
摘要翻译：描述了使用可扩展索引来管理IP网络中的路由信息的系统和方法，并使用索引来控制网络。索引和相关控件适用于路由域内的任何路由器。

10. 发明申请

US20060206606A1 Method and apparatus for providing dynamic traffic control within a communications network 审中-公开
标题翻译：用于在通信网络内提供动态业务控制的方法和装置
公开(公告)号：US20060206606A1
公开(公告)日：2006-09-14
申请号：US11074988
申请日：2005-03-08
申请人： Ali Iloglu , Han Nguyen , John Mulligan , Kevin D'Souza
发明人： Ali Iloglu , Han Nguyen , John Mulligan , Kevin D'Souza
IPC分类号： G06F15/173
CPC分类号： H04L41/0893 , H04L45/04 , H04L45/42
摘要： A method and apparatus for providing traffic management through dynamic and granular definitions of route groups. Within a communications network, a traffic routing control unit (e.g., an intelligent route service control point (IRSCP)) creates route group assignments for each route within a customers network in accordance with a customer's routing plan, determines protocol control values to be set within each edge router of the network to fulfill the group assignments, and uses border gateway protocol (BGP) to set the protocol control values in the edge routers to facilitate fulfilling the route group assignments. Using the traffic routing control unit and programming the protocol control values of the edge routers, enables the network to be flexibly defined and the traffic routing within the network to have very granular control.
摘要翻译：一种用于通过路由组的动态和粒度定义来提供流量管理的方法和装置。在通信网络内，业务路由控制单元（例如，智能路由业务控制点（IRSCP））根据客户的路由计划为客户网络内的每个路由创建路由组分配，确定要在其中设置的协议控制值网络的每个边缘路由器完成组分配，并使用边界网关协议（BGP）在边缘路由器中设置协议控制值，以便于完成路由组分配。使用流量路由控制单元和编程边缘路由器的协议控制值，可以灵活定义网络，网络内的流量路由具有非常细微的控制。

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