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1. 发明申请

US20120093864A1 Methods and Compositions for Polytopic Vaccination 有权
标题翻译： Polytopic疫苗接种的方法和组成
公开(公告)号：US20120093864A1
公开(公告)日：2012-04-19
申请号：US13335655
申请日：2011-12-22
申请人： Michael W. Deem , Jeong-Man Park , Hao Zhou
发明人： Michael W. Deem , Jeong-Man Park , Hao Zhou
IPC分类号： A61K39/02 , A61K39/39 , A61K39/002 , A61P33/02 , C12Q1/02 , A61P37/04 , A61P31/04 , A61P33/00 , A61K39/00 , G01N33/566
CPC分类号： A61K39/00 , A61K39/12 , A61K2039/54 , A61K2039/545 , C12N2770/24134 , G01N33/6893 , G01N2800/26 , Y02A50/386 , Y02A50/388 , Y02A50/39 , Y02A50/491 , Y02A50/53 , Y02A50/60
摘要： The present invention relates to therapeutic and prophylactic methods for treating Or preventing an infectious disease in a subject by stimulating or enhancing an immune response against an infectious agent causing the disease. The methods comprise administering to the subject a plurality of compositions, each composition being administered to a different site Of the subject, wherein each site is, or substantially drains to, an anatomically distinct lymph node, a group of lymph nodes, a nonencapsulated cluster of lymphoid tissue, or the spleen. Each composition comprises at least one antigenic molecule having one or more epitopes of the same infectious agent or a strain thereof. The antigenic molecules of each composition comprise in aggregate a set of epitopes distinct from that of any other composition that is administered to the subject.
摘要翻译：本发明涉及通过刺激或增强针对引起该疾病的感染因素的免疫应答来治疗或预防受试者的感染性疾病的治疗和预防方法。所述方法包括向受试者施用多种组合物，每种组合物施用于受试者的不同部位，其中每个部位是或基本上排泄到解剖学上不同的淋巴结，一组淋巴结，非包封的淋巴组织或脾。每种组合物包含至少一种具有相同感染剂或其应变的一个或多个表位的抗原分子。每种组合物的抗原性分子包含与施用于受试者的任何其它组合物不同的一组表位。

2. 发明授权

US08110196B2 Methods and compositions for polytopic vaccination 有权
标题翻译：多元接种疫苗的方法和组成
公开(公告)号：US08110196B2
公开(公告)日：2012-02-07
申请号：US11118917
申请日：2005-04-29
申请人： Michael W. Deem , Jeong-Man Park , Hao Zhou
发明人： Michael W. Deem , Jeong-Man Park , Hao Zhou
IPC分类号： A61K39/12 , A61K39/295 , A61K45/00 , A61K47/00
CPC分类号： A61K39/00 , A61K39/12 , A61K2039/54 , A61K2039/545 , C12N2770/24134 , G01N33/6893 , G01N2800/26 , Y02A50/386 , Y02A50/388 , Y02A50/39 , Y02A50/491 , Y02A50/53 , Y02A50/60
摘要： The present invention relates to therapeutic and prophylactic methods for treating or preventing an infectious disease in a subject by stimulating or enhancing an immune response against an infectious agent causing the disease. The methods comprise administering to the subject a plurality of compositions, each composition being administered to a different site of the subject, wherein each site is, or substantially drains to, an anatomically distinct lymph node, a group of lymph nodes, a nonencapsulated cluster of lymphoid tissue, or the spleen. Each composition comprises at least one antigenic molecule having one or more epitopes of the same infectious agent or a strain thereof. The antigenic molecules of each composition comprise in aggregate a set of epitopes distinct from that of any other composition that is administered to the subject.
摘要翻译：本发明涉及通过刺激或增强针对引起该疾病的感染因素的免疫应答来治疗或预防受试者的感染性疾病的治疗和预防方法。所述方法包括向受试者施用多种组合物，将每种组合物施用于受试者的不同部位，其中每个部位是或基本上排泄到解剖学上不同的淋巴结，一组淋巴结，非包封的淋巴组织或脾。每种组合物包含至少一种具有相同感染剂或其应变的一个或多个表位的抗原分子。每种组合物的抗原性分子包含与施用于受试者的任何其它组合物不同的一组表位。

3. 发明申请

US20170210684A1 ZEOLITES FOR HYDROCARBON CONVERSION 审中-公开
公开(公告)号：US20170210684A1
公开(公告)日：2017-07-27
申请号：US15327738
申请日：2015-07-22
申请人： Joern Ilja Siepmann , Peng Bai , Michael Tsapatsis , Michael W. Deem
发明人： Joern Ilja Siepmann , Peng Bai , Michael Tsapatsis , Michael W. Deem
IPC分类号： C07C5/27 , B01J29/74
CPC分类号： C07C5/2775 , B01J29/74 , B01J29/7446 , B01J29/7461 , C01B39/00
摘要： A process is provided for the conversion of a hydrocarbon feedstock using catalyst system comprising one or more zeolites. The zeolites have been identified to be capable of selectively catalyzing the hydroisomerization reactions of linear or slightly branched long-chain hydrocarbons. Also provided is a method for the systematic discovery of zeolite framework types that are suitable for such conversion processes, according to a set of criteria: large affinity towards linear alkanes, high adsorption selectivity of linear over branched alkanes, and low adsorption selectivity of linear alkanes of different molecular weights.

4. 发明授权

US5871697A Method and apparatus for identifying, classifying, or quantifying DNA sequences in a sample without sequencing 失效
公开(公告)号：US5871697A
公开(公告)日：1999-02-16
申请号：US547214
申请日：1995-10-24
申请人： Jonathan Marc Rothberg , Michael W. Deem , John W. Simpson
发明人： Jonathan Marc Rothberg , Michael W. Deem , John W. Simpson
IPC分类号： C12N15/10 , C12Q1/68 , G06F19/22 , G06F19/24 , G01N15/06 , C07H21/04 , G06G7/58
CPC分类号： G06F19/24 , C12N15/10 , C12Q1/68 , C12Q1/6809 , C12Q1/6855 , G06F19/22 , Y10S707/99936
摘要： This invention provides methods by which biologically derived DNA sequences in a mixed sample or in an arrayed single sequence clone can be determined and classified without sequencing. The methods make use of information on the presence of carefully chosen target subsequences, typically of length from 4 to 8 base pairs, and preferably the length between target subsequences in a sample DNA sequence together with DNA sequence databases containing lists of sequences likely to be present in the sample to determine a sample sequence. The preferred method uses restriction endonucleases to recognize target subsequences and cut the sample sequence. Then carefully chosen recognition moieties are ligated to the cut fragments, the fragments amplified, and the experimental observation made. Polymerase chain reaction (PCR) is the preferred method of amplification. Another embodiment of the invention uses information on the presence or absence of carefully chosen target subsequences in a single sequence clone together with DNA sequence databases to determine the clone sequence. Computer implemented methods are provided to analyze the experimental results and to determine the sample sequences in question and to carefully choose target subsequences in order that experiments yield a maximum amount of information.

5. 发明授权

US06640191B1 Library design in combinatorial chemistry by Monte Carlo methods 有权
标题翻译：通过蒙特卡罗方法组合化学中的图书馆设计
公开(公告)号：US06640191B1
公开(公告)日：2003-10-28
申请号：US09474965
申请日：1999-12-30
申请人： Michael W. Deem , Marco Falcioni
发明人： Michael W. Deem , Marco Falcioni
IPC分类号： G01N3348
CPC分类号： C40B40/18 , B01J2219/00378 , B01J2219/00527 , B01J2219/00576 , B01J2219/00585 , B01J2219/00596 , B01J2219/00605 , B01J2219/0061 , B01J2219/00641 , B01J2219/00659 , B01J2219/00677 , B01J2219/00691 , B01J2219/007 , B01J2219/00745 , B01J2219/00747 , B82Y30/00 , C40B10/00 , C40B20/00 , C40B30/08 , C40B60/14 , G01N31/10
摘要： Methods for generating multiple rounds of combinatorial libraries, which use Monte Carlo methods to search the multi-dimensional composition and non-composition space of variables in combinatorial chemistry; the combinatorial libraries generated and screened by such Monte Carlo methods; and an apparatus for generating and screening such libraries robotically. The process involves preparing a first set of samples, then changing the composition and non-composition variables of the samples using Monte Carlo sampling methods, and accepting proposed new samples according to a detailed balance acceptance criterion.
摘要翻译：用于生成多轮组合库的方法，其使用蒙特卡罗方法来搜索组合化学中变量的多维组成和非组成空间; 组合图书馆通过蒙特卡罗方法生成和筛选; 以及用于机器人生成和筛选这些库的装置。该过程包括制备第一组样品，然后使用蒙特卡罗取样方法改变样品的组成和非组成变量，并根据详细的平衡接受标准接受提出的新样品。

6. 发明授权

US06190868B1 Method for identifying a nucleic acid sequence 失效
标题翻译：识别核酸序列的方法
公开(公告)号：US06190868B1
公开(公告)日：2001-02-20
申请号：US09381779
申请日：1999-09-23
申请人： Jonathan M. Rothberg , Michael W. Deem , John W. Simpson
发明人： Jonathan M. Rothberg , Michael W. Deem , John W. Simpson
IPC分类号： C12Q168
CPC分类号： C12N15/1093 , C12Q1/6809 , C12Q1/6813 , C12Q1/6855 , C12Q2525/191 , C12Q2565/125
摘要： The present invention discloses a methodology which is directed to providing positive confirmation that nucleic acids, possessing putatively identified sequence predicted to generate observed GeneCalling™ signals, are actually present within the sample from which the signal was originally derived. The putatively identified nucleic acid fragment within the sample possesses 3′- and 5′-ends with known terminal subsequences, said method comprising; contacting said nucleic acid fragments in said sample in amplifying conditions with (i) a nucleic acid polymerase; (ii) “regular” primer oligonucleotides having sequences comprising hybridizable portions of said known terminal subsequences; and (iii) a “poisoning” oligonucleotide primer, said poisoning primer having a sequence comprising a first subsequence that is a portion of the sequence of one of said known terminal subsequences and a second subsequence that is a hybridizable portion of said putatively unidentified sequence which is adjacent to said one known terminal subsequence, wherein nucleic acids amplified with said poisoning primer are distinguishable upon detection from nucleic acids amplified with said nucleic acids amplified only with said regular primers; separating the products of the contacting step; and the detecting sequence is confirmed if the nucleic acids amplified with said poisoning primer are detected.
摘要翻译：本发明公开了一种旨在提供肯定确认的方法，核酸具有预测产生观察到的GeneCalling TM信号的推定鉴定序列实际上存在于最初得到信号的样本内。样品中推测鉴定的核酸片段具有已知末端子序列的3'-和5'-末端，所述方法包括：在扩增条件下使所述样品中的所述核酸片段与（i）核酸聚合酶接触; （ii）具有包含所述已知末端子序列的可杂交部分的序列的“规则”引物寡核苷酸; 所述中毒引物具有包含作为所述已知末端子序列之一序列的一部分的第一子序列和作为所述假定未鉴定序列的可杂交部分的第二子序列的序列，与所述一个已知末端子序列相邻，其中用所述中毒引物扩增的核酸在从用所述常规引物扩增的所述核酸扩增的核酸检测时是可区分的; 分离接触步骤的产物; 如果检测到用所述中毒引物扩增的核酸，则确认检测序列。

7. 发明授权

US6141657A Method and apparatus for identifying classifying or quantifying DNA sequences in a sample without sequencing 失效
标题翻译：用于鉴定样品中DNA序列分类或定量的方法和装置，无需测序
公开(公告)号：US6141657A
公开(公告)日：2000-10-31
申请号：US942406
申请日：1997-10-01
申请人： Jonathan Marc Rothberg , Michael W. Deem , John W. Simpson
发明人： Jonathan Marc Rothberg , Michael W. Deem , John W. Simpson
IPC分类号： C12N15/10 , C12Q1/68 , G06F19/22 , G06F19/24 , G06F17/30
CPC分类号： G06F19/24 , C12N15/10 , C12Q1/68 , C12Q1/6809 , C12Q1/6855 , G06F19/22 , Y10S707/99936
摘要： This invention provides methods by which biologically derived DNA sequences in a mixed sample or in an arrayed single sequence clone can be determined and classified without sequencing. The methods make use of information on the presence of carefully chosen target subsequences, typically of length from 4 to 8 base pairs, and preferably the length between target subsequences in a sample DNA sequence together with DNA sequence databases containing lists of sequences likely to be present in the sample to determine a sample sequence. The preferred method uses restriction endonucleases to recognize target subsequences and cut the sample sequence. Then carefully chosen recognition moieties are ligated to the cut fragments, the fragments amplified, and the experimental observation made. Polymerase chain reaction (PCR) is the preferred method of amplification. Another embodiment of the invention uses information on the presence or absence of carefully chosen target subsequences in a single sequence clone together with DNA sequence databases to determine the clone sequence. Computer implemented methods are provided to analyze the experimental results and to determine the sample sequences in question and to carefully choose target subsequences in order that experiments yield a maximum amount of information.
摘要翻译：本发明提供了可以确定和分类混合样品或排列单序列克隆中的生物衍生DNA序列而不进行测序的方法。这些方法利用关于精确选择的目标子序列的存在的信息，通常长度为4至8个碱基对，优选样品DNA序列中目标子序列之间的长度以及含有可能存在的序列的DNA序列数据库在样品中确定样品序列。优选的方法是使用限制性核酸内切酶识别目标子序列并切割样品序列。然后仔细选择识别部分连接到切割片段，扩增片段，并进行实验观察。聚合酶链反应（PCR）是优选的扩增方法。本发明的另一个实施方案使用关于在单个序列克隆中与DNA序列数据库一起存在或不存在仔细选择的目标子序列的信息来确定克隆序列。提供计算机实现的方法来分析实验结果并确定所讨论的样本序列，并仔细选择目标子序列，以便实验产生最大量的信息。

8. 发明授权

US06453245B1 Method and apparatus for identifying, classifying, or quantifying protein sequences in a sample without sequencing 失效
标题翻译：用于在不测序的情况下鉴定，分类或定量样品中蛋白质序列的方法和装置
公开(公告)号：US06453245B1
公开(公告)日：2002-09-17
申请号：US09757528
申请日：2001-01-10
申请人： Jonathan Marc Rothberg , Michael W. Deem , John W. Simpson
发明人： Jonathan Marc Rothberg , Michael W. Deem , John W. Simpson
IPC分类号： G01N1506
CPC分类号： G06F19/24 , C12N15/10 , C12Q1/68 , C12Q1/6809 , C12Q1/6855 , G06F19/22 , Y10S707/99936
摘要： This invention provides methods by which biologically derived DNA sequences in a mixed sample or in an arrayed single sequence clone can be determined and classified without sequencing. The methods make use of information on the presence of carefully chosen target subsequences, typically of length from 4 to 8 base pairs, and preferably the length between target subsequences in a sample DNA sequence together with DNA sequence databases containing lists of sequences likely to be present in the sample to determine a sample sequence. The preferred method uses restriction endonucleases to recognize target subsequences and cut the sample sequence. Then carefully chosen recognition moieties are ligated to the cut fragments, the fragments amplified, and the experimental observation made. Polymerase chain reaction (PCR) is the preferred method of amplification. Another embodiment of the invention uses information on the presence or absence of carefully chosen target subsequences in a single sequence clone together with DNA sequence databases to determine the clone sequence. Computer implemented methods are provided to analyze the experimental results and to determine the sample sequences in question and to carefully choose target subsequences in order that experiments yield a maximum amount of information.
摘要翻译：本发明提供了可以确定和分类混合样品或排列单序列克隆中的生物衍生DNA序列而不进行测序的方法。这些方法利用关于精确选择的目标子序列的存在的信息，通常长度为4至8个碱基对，优选样品DNA序列中目标子序列之间的长度以及含有可能存在的序列的DNA序列数据库在样品中确定样品序列。优选的方法是使用限制性核酸内切酶识别目标子序列并切割样品序列。然后仔细选择识别部分连接到切割片段，扩增片段，并进行实验观察。聚合酶链反应（PCR）是优选的扩增方法。本发明的另一个实施方案使用关于在单个序列克隆中与DNA序列数据库一起存在或不存在仔细选择的目标子序列的信息来确定克隆序列。提供计算机实现的方法来分析实验结果并确定所讨论的样本序列，并仔细选择目标子序列，以便实验产生最大量的信息。

9. 发明授权

US06231812B1 Method and apparatus for indentifying, classifying, or quantifying protein sequences in a sample without sequencing 失效
标题翻译：用于在不测序的情况下对样品中的蛋白质序列进行鉴定，分类或定量的方法和装置
公开(公告)号：US06231812B1
公开(公告)日：2001-05-15
申请号：US09322617
申请日：1999-05-28
申请人： Jonathan Marc Rothberg , Michael W. Deem , John W. Simpson
发明人： Jonathan Marc Rothberg , Michael W. Deem , John W. Simpson
IPC分类号： G01N1506
CPC分类号： G06F19/24 , C12N15/10 , C12Q1/68 , C12Q1/6809 , C12Q1/6855 , G06F19/22 , Y10S707/99936
摘要： This invention provides methods by which biologically derived DNA sequences in a mixed sample or in an arrayed single sequence clone can be determined and classified without sequencing. The methods make use of information on the presence of carefully chosen target subsequences, typically of length from 4 to 8 base pairs, and preferably the length between target subsequences in a sample DNA sequence together with DNA sequence databases containing lists of sequences likely to be present in the sample to determine a sample sequence. The preferred method uses restriction endonucleases to recognize target subsequences and cut the sample sequence. Then carefully chosen recognition moieties are ligated to the cut fragments, the fragments amplified, and the experimental observation made. Polymerase chain reaction (PCR) is the preferred method of amplification. Another embodiment of the invention uses information on the presence or absence of carefully chosen target subsequences in a single sequence clone together with DNA sequence databases to determine the clone sequence. Computer implemented methods are provided to analyze the experimental results and to determine the sample sequences in question and to carefully choose target subsequences in order that experiments yield a maximum amount of information.
摘要翻译：本发明提供了可以确定和分类混合样品或排列单序列克隆中的生物衍生DNA序列而不进行测序的方法。这些方法利用关于精确选择的目标子序列的存在的信息，通常长度为4至8个碱基对，优选样品DNA序列中目标子序列之间的长度以及含有可能存在的序列的DNA序列数据库在样品中确定样品序列。优选的方法是使用限制性核酸内切酶识别目标子序列并切割样品序列。然后仔细选择识别部分连接到切割片段，扩增片段，并进行实验观察。聚合酶链反应（PCR）是优选的扩增方法。本发明的另一个实施方案使用关于在单个序列克隆中与DNA序列数据库一起存在或不存在仔细选择的目标子序列的信息来确定克隆序列。提供计算机实现的方法来分析实验结果并确定所讨论的样本序列，并仔细选择目标子序列，以便实验产生最大量的信息。

10. 发明授权

US5938904A Separation of charged particles by a spatially and temporally varying electric field 失效
标题翻译：通过空间和时间变化的电场分离带电粒子
公开(公告)号：US5938904A
公开(公告)日：1999-08-17
申请号：US623346
申请日：1996-03-27
申请人： Joel S. Bader , Jonathan M. Rothberg , Michael W. Deem , Gregory T. Mulhern , Gregory T. Went
发明人： Joel S. Bader , Jonathan M. Rothberg , Michael W. Deem , Gregory T. Mulhern , Gregory T. Went
IPC分类号： B01D57/02 , G01N27/26 , G01N27/447
CPC分类号： B82Y30/00 , G01N27/44773
摘要： This invention relates to a method and device for separating charged particles according to their diffusivities in a separation medium by means of a spatially and temporarily varying electric potential. The method is particularly suited to sizing and separating DNA fragments, to generating DNA fragment length polymorphism patterns, and to sequencing DNA through the separation of DNA sequencing reaction products. The method takes advantage of the transport of charged particles subject to an electric potential that is cycled between an off-state (in which the potential is flat) and one or more on-states, in which the potential is preferably spatially periodic with a plurality of eccentrically shaped stationary potential wells. The potential wells are at constant spatial positions in the on-state. Differences in liquid-phase diffusivities lead to charged particle separation. A preferred embodiment of the device is microfabricated. A separation medium fills physically defined separation lanes in the device. Electrodes deposited substantially transverse to the lanes create the required electric potentials. Advantageously, injection ports allow sample loading, and special gating electrodes focus the sample prior to separation. The effects of thermal gradients are minimized by placing the device in contact with a thermal control module, preferably a plurality of Peltier-effect heat transfer devices. The small size of a microfabricated device permits rapid separation in a plurality of separation lanes.
摘要翻译：本发明涉及一种通过空间和暂时变化的电位根据其在分离介质中的扩散性分离带电粒子的方法和装置。该方法特别适用于分选DNA片段，产生DNA片段长度多态性模式，并通过分离DNA测序反应产物对DNA进行测序。该方法利用带电粒子的传输，该带电粒子经历在关闭状态（其中电位为平坦）和一个或多个导通状态之间循环的电位，其中电位优选为空间周期性的多个偏心固定势阱。势阱在导通状态下处于恒定的空间位置。液相扩散性的差异导致带电粒子分离。装置的优选实施例是微制造的。分离介质填充设备中物理定义的分离通道。基本横向于通道沉积的电极产生所需的电位。有利地，注射端口允许样品加载，并且特殊门电极在分离之前聚焦样品。通过将设备与热控制模块（优选多个珀耳帖效应传热装置）接触来使热梯度的影响最小化。微型加工装置的小尺寸允许在多个分离通道中快速分离。

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