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1. 发明申请

US20050019786A1 Methods and apparatus for preparing arrays comprising features having degenerate biopolymers 失效
标题翻译：用于制备包括具有简并生物聚合物的特征的阵列的方法和装置
公开(公告)号：US20050019786A1
公开(公告)日：2005-01-27
申请号：US10722155
申请日：2003-11-25
申请人： Theodore Sana , Eric Leproust , Paul Wolber
发明人： Theodore Sana , Eric Leproust , Paul Wolber
IPC分类号： C12Q1/68 , C12P19/34 , C12P21/06
CPC分类号： C12Q1/6813
摘要： Methods and apparatus are disclosed for synthesizing a plurality of biopolymers at predetermined feature locations on a surface of a substrate. One or more of the feature locations comprises degenerate biopolymers. One or more biopolymer subunit precursors are added, in multiple rounds of subunit additions, at each of multiple feature locations on the surface to form the plurality of biopolymers on the surface. For each feature location comprising degenerate biopolymers, the biopolymer subunit precursors comprise a mixture of biopolymer subunit precursors for forming the degenerate biopolymers at the feature location.
摘要翻译：公开了用于在基材表面上的预定特征位置合成多种生物聚合物的方法和装置。一个或多个特征位置包括简并生物聚合物。在表面上的多个特征位置的每一个处，在多轮亚基添加物中加入一种或多种生物聚合物亚基前体，以在表面上形成多种生物聚合物。对于包含简并生物聚合物的每个特征位置，生物聚合物亚基前体包含用于在特征位置形成简并生物聚合物的生物聚合物亚基前体的混合物。

2. 发明申请

US20050095596A1 Methods for identifying suitable nucleic acid probe sequences for use in nucleic acid arrays 审中-公开
标题翻译：用于鉴定用于核酸阵列的合适的核酸探针序列的方法
公开(公告)号：US20050095596A1
公开(公告)日：2005-05-05
申请号：US10698195
申请日：2003-10-30
申请人： Eric Leproust , Paul Wolber
发明人： Eric Leproust , Paul Wolber
IPC分类号： B01J19/00 , C12Q1/68 , C40B40/06 , C40B50/14 , C40B70/00
CPC分类号： B82Y30/00 , B01J19/0046 , B01J2219/00549 , B01J2219/00659 , B01J2219/00675 , B01J2219/00693 , B01J2219/00722 , C12Q1/6837 , C40B40/06 , C40B50/14 , C40B70/00
摘要： Methods of identifying a sequence of a probe, e.g., a biopolymeric probe, such as a nucleic acid, for use as a surface immobilized probe for a target molecule of interest, e.g., a target nucleic acid, are provided. A feature of the subject methods is that a set of candidate sequences is evaluated for full-length synthesis probability, e.g., by evaluating the candidate sequences' depurination susceptibility. The subject invention also includes algorithms for performing the subject methods recorded on a computer readable medium, as well as computational analysis systems that include the same. Also provided are nucleic acid arrays produced with probes having sequences identified by the subject methods, as well as methods for using the same.
摘要翻译：提供了鉴定探针例如生物聚合物探针（例如核酸）的序列用于靶目标分子例如目标核酸的表面固定化探针的方法。本发明方法的一个特征是，例如通过评估候选序列的去毒敏感性来评估一组候选序列的全长合成概率。本发明还包括用于执行记录在计算机可读介质上的主题方法的算法，以及包括其的计算分析系统。还提供了由具有由本发明方法鉴定的序列的探针产生的核酸阵列，以及使用该序列的方法。

3. 发明申请

US20050273268A1 Method and system for quantifying and removing spatial-intensity trends in microarray data 有权
标题翻译：用于量化和消除微阵列数据中的空间强度趋势的方法和系统
公开(公告)号：US20050273268A1
公开(公告)日：2005-12-08
申请号：US10859868
申请日：2004-06-02
申请人： Jayati Ghosh , Bill Peck , Eric Leproust , Charles Troup , Glenda Delenstarr , Patrick Collins , John Corson , Paul Wolber , Xiangyang Zhou
发明人： Jayati Ghosh , Bill Peck , Eric Leproust , Charles Troup , Glenda Delenstarr , Patrick Collins , John Corson , Paul Wolber , Xiangyang Zhou
IPC分类号： G01N33/48 , G01N33/50 , G06F19/00
CPC分类号： G06F19/24 , G06F19/20
摘要： A method and system for quantifying and correcting spatial-intensity trends for each channel of a microarray data set having one or more channels. The method and system of one embodiment of the present invention selects a set of features from each channel of the microarray data set. Based on the selected set of features, a surface is used to determine the intensities for all features in each channel of the microarray data set. Spatial-intensity trends within the microarray data set are quantified, based on the surface to the intensities for each channel of the microarray data set. After the surface has been determined, the spatial-intensity trend can be removed from the microarray data set.
摘要翻译：一种用于量化和校正具有一个或多个通道的微阵列数据集的每个通道的空间强度趋势的方法和系统。本发明的一个实施例的方法和系统从微阵列数据集的每个通道中选择一组特征。基于所选择的特征集合，使用表面来确定微阵列数据集的每个通道中的所有特征的强度。基于微阵列数据集的每个通道的表面到强度，量化微阵列数据集内的空间强度趋势。在确定表面之后，可以从微阵列数据集中去除空间强度趋势。

4. 发明申请

US20050148004A1 Chemical arrays and methods of using the same 失效
标题翻译：化学数组及其使用方法
公开(公告)号：US20050148004A1
公开(公告)日：2005-07-07
申请号：US11008603
申请日：2004-12-08
申请人： Paul Wolber , Robert Kincaid , Douglas Amorese , Diane Ilsley-Tyree , Andrew Atwell , Mel Kronick , Eric Leproust
发明人： Paul Wolber , Robert Kincaid , Douglas Amorese , Diane Ilsley-Tyree , Andrew Atwell , Mel Kronick , Eric Leproust
IPC分类号： B01J19/00 , C12Q1/68 , C40B40/06 , C40B70/00 , C12P19/34
CPC分类号： C12Q1/6883 , B01J2219/00497 , B01J2219/00572 , B01J2219/00574 , B01J2219/00576 , B01J2219/00585 , B01J2219/00596 , B01J2219/00605 , B01J2219/00608 , B01J2219/00617 , B01J2219/00626 , B01J2219/00659 , B01J2219/00675 , B01J2219/00722 , B82Y30/00 , C12Q1/6806 , C12Q1/6837 , C12Q1/6876 , C12Q2600/158 , C40B40/06 , C40B50/14 , C40B70/00 , C12Q2565/537 , C12Q2525/161 , C12Q2565/525 , C12Q2525/131 , C12Q2521/301
摘要： Methods and compositions for generating mixtures of product molecules from an initial chemical array are provided. In the subject methods, a chemical array of surface immobilized first moieties is subjected to cleavage conditions such that a composition of solution phase first moieties is produced. The resultant composition of solution phase first moieties is then contacted with one or more reactants to produce a mixture of product molecules that are different from the first moieties. Also provided are the arrays employed in the subject methods and kits for practicing the subject methods.
摘要翻译：提供了从初始化学阵列产生产物分子的混合物的方法和组合物。在本发明方法中，表面固定的第一部分的化学阵列经受切割条件，使得产生溶液相第一部分的组合物。然后将所得到的溶液相第一部分的组合物与一种或多种反应物接触以产生不同于第一部分的产物分子的混合物。还提供了用于实践本发明方法的主题方法和试剂盒中使用的阵列。

5. 发明申请

US20050095598A1 Nucleic acid arrays comprising depurination probe features and methods for using the same 审中-公开
标题翻译：包含脱嘌呤探针特征的核酸阵列及其使用方法
公开(公告)号：US20050095598A1
公开(公告)日：2005-05-05
申请号：US10699281
申请日：2003-10-30
申请人： Paul Wolber , Eric Leproust
发明人： Paul Wolber , Eric Leproust
IPC分类号： C12Q1/68
CPC分类号： C12Q1/6837 , B01J2219/00608 , B01J2219/0061 , B01J2219/00612 , B01J2219/00626 , B01J2219/00722 , C12Q2545/101
摘要： In situ produced nucleic acid arrays that include at least one depurination probe feature are provided, where the at least one depurination probe feature is made up of in situ produced depurination probes. In using the subject arrays, the arrays are contacted with a nucleic acid sample that includes a target which specifically binds to the full length depurination probe of the depurination feature, and the amount of resultant duplex nucleic acids in the feature is determined (e.g., based on detected signal from the feature) to evaluate the extent of depurination that occurred during in situ synthesis of the array. The subject arrays find use in a variety of different applications, including array fabrication quality control applications, e.g., to determine the extent of depurination in a given lot of nucleic acid arrays produced using an in situ fabrication protocol. Also provided are computer programming, devices that include the same and kits that find use in practicing the subject methods.
摘要翻译：提供了包含至少一个去除血清探针特征的原位产生的核酸阵列，其中至少一个去血清探针特征由原位产生的去血清探针组成。在使用受试者阵列时，使阵列与核酸样品接触，所述核酸样品包括特异性结合脱嘌呤特征的全长去除探针的靶标，并且确定特征中得到的双链体核酸的量（例如，基于对来自特征的检测信号）来评估在阵列的原位合成期间发生的去除程度。主题阵列可用于各种不同的应用，包括阵列制造质量控制应用，例如确定使用原位制备方案产生的给定批次的核酸阵列中的去除程度。还提供了计算机程序设计，包括相同的设备和用于实践主题方法的套件。

6. 发明申请

US20100093974A1 Linkers and Co-Coupling Agents for Optimization of Oligonucleotide Synthesis and Purification on Solid Supports 有权
标题翻译：用于优化固体支持物上的寡核苷酸合成和纯化的接头和共偶联剂
公开(公告)号：US20100093974A1
公开(公告)日：2010-04-15
申请号：US12493985
申请日：2009-06-29
申请人： Xiaolian Gao , Hua Zhang , Peilin Yu , Eric Leproust , Jean Philippe Pellois , Qin Xiang , Xiaochuan Zhou
发明人： Xiaolian Gao , Hua Zhang , Peilin Yu , Eric Leproust , Jean Philippe Pellois , Qin Xiang , Xiaochuan Zhou
IPC分类号： C07K9/00 , C07H21/00
CPC分类号： C07H19/06 , C07B2200/11 , C07H19/10 , C07H19/16 , C07H19/20 , C07H21/00 , C07K2/00 , C40B40/06 , C40B50/18 , C40B80/00
摘要： A method of modulation of synthesis capacity on and cleavage properties of synthetic oligomers from solid support is described. The method utilizes linker molecules attached to a solid surface and co-coupling agents that have similar reactivities to the coupling compounds with the surface functional groups. The preferred linker molecules provide an increased density of polymers and more resistance to cleavage from the support surface. The method is particularly useful for synthesis of oligonucleotides, oligonucleotides microarrays, peptides, and peptide microarrays. The stable linkers are also coupled to anchor molecules for synthesis of DNA oligonucleotides using on support purification, eliminating time-consuming chromatography and metal cation presence. Oligonucleotides thus obtained can be directly used for mass analysis, DNA amplification and ligation, hybridization, and many other applications.
摘要翻译：描述了从固体支持物调节合成低聚物的合成能力和裂解性质的方法。该方法利用连接到固体表面的连接分子和与表面官能团的偶联化合物具有相似反应性的共偶联剂。优选的接头分子提供了增加的聚合物密度，并且具有更强的抗支撑表面的裂解性。该方法对于合成寡核苷酸，寡核苷酸微阵列，肽和肽微阵列特别有用。稳定的接头还与锚分子偶联，用于在支持物纯化上合成DNA寡核苷酸，消除了耗时的色谱和金属阳离子存在。如此获得的寡核苷酸可以直接用于质量分析，DNA扩增和连接，杂交和许多其他应用。

7. 发明申请

US20070224601A1 Quantification of depurination through the use of two cleavage sites 审中-公开
标题翻译：通过使用两个切割位点进行定量分析
公开(公告)号：US20070224601A1
公开(公告)日：2007-09-27
申请号：US11388727
申请日：2006-03-24
申请人： Heather McCuen , Eric Leproust
发明人： Heather McCuen , Eric Leproust
IPC分类号： C12Q1/68
CPC分类号： C12Q1/6837
摘要： The invention is directed an array comprising at least one depurination probe including a depurination sensitive first cleavage site adjacent a first tag region; and a base-cleavable second cleavage site adjacent a second tag region wherein the first tag region and the second tag region are independently quantifiable upon release from the depurination probe; and a method for use thereof to quantify depurination side reactions and overall yield during in situ array synthesis.
摘要翻译：本发明涉及一种阵列，其包括至少一个包含与第一标签区相邻的去血清敏感的第一切割位点的去血清探针; 以及与第二标签区相邻的可裂解的第二切割位点，其中第一标签区和第二标记区在从脱血针探针释放时可独立地定量; 以及其用于定量原位阵列合成期间的脱嘌呤副反应和总产率的方法。

8. 发明申请

US20060057736A1 Methods and devices for fabricating chemical arrays 审中-公开
标题翻译：制造化学阵列的方法和装置
公开(公告)号：US20060057736A1
公开(公告)日：2006-03-16
申请号：US10940165
申请日：2004-09-13
申请人： Bill Peck , Eric Leproust
发明人： Bill Peck , Eric Leproust
IPC分类号： B01L3/00
CPC分类号： B01J19/0046 , B01J2219/00378 , B01J2219/00497 , B01J2219/00527 , B01J2219/00547 , B01J2219/00565 , B01J2219/00576 , B01J2219/00581 , B01J2219/00585 , B01J2219/00596 , B01J2219/00641 , B01J2219/00657 , B01J2219/00659 , B01J2219/00662 , B01J2219/00664 , B01J2219/00675 , B01J2219/00689 , B01J2219/00693 , B01J2219/00722 , B01J2219/00725 , B01J2219/00731 , B01L3/0268 , B01L2200/143 , B01L2200/148 , B01L2300/0627 , B01L2400/0403 , B82Y30/00 , G01N2035/1041 , Y10T436/25 , Y10T436/2575
摘要： The subject invention provides methods and devices for fabricating chemical arrays. Also provided are chemical arrays fabricated according to the subject methods, and methods of using chemical arrays produced according to the subject invention.
摘要翻译：本发明提供了用于制造化学阵列的方法和装置。还提供了根据本发明方法制造的化学阵列，以及使用根据本发明制备的化学阵列的方法。

9. 发明申请

US20060057587A1 Oligonucleotide arrays comprising background probes 审中-公开
标题翻译：包含背景探针的寡核苷酸阵列
公开(公告)号：US20060057587A1
公开(公告)日：2006-03-16
申请号：US10939650
申请日：2004-09-13
申请人： Scott Vacha , Eric Leproust
发明人： Scott Vacha , Eric Leproust
IPC分类号： C12Q1/68 , C12M1/34
CPC分类号： C12Q1/6837 , C12Q2545/101 , C12Q2525/161
摘要： The invention relates to chemical arrays comprising a plurality of features comprising biopolymers at known locations on the substrate, wherein at least one feature comprises specific hybridization probes designed or selected to bind to specific target sequences and background probes for evaluating non-specific binding of target. Methods, systems, and kits for making and using the arrays are also described.
摘要翻译：本发明涉及包含多个特征的化学阵列，其包含在底物上已知位置处的生物聚合物，其中至少一个特征包括设计或选择以结合特异性靶序列的特异性杂交探针和用于评估靶的非特异性结合的背景探针。还描述了用于制造和使用阵列的方法，系统和套件。

10. 发明申请

US20050003395A1 Methods and compositions for high throughput identification of protein/nucleic acid binding pairs 失效
标题翻译：高通量鉴定蛋白质/核酸结合对的方法和组合物
公开(公告)号：US20050003395A1
公开(公告)日：2005-01-06
申请号：US10813639
申请日：2004-03-29
申请人： Robert Gellibolian , Eric Leproust
发明人： Robert Gellibolian , Eric Leproust
IPC分类号： C12Q1/68 , C40B40/06 , C40B60/14 , G01N33/53
CPC分类号： C12Q1/6837 , B01J2219/00378 , B01J2219/00387 , B01J2219/00497 , B01J2219/00527 , B01J2219/00576 , B01J2219/00585 , B01J2219/00596 , B01J2219/00605 , B01J2219/0061 , B01J2219/00612 , B01J2219/00626 , B01J2219/0063 , B01J2219/00637 , B01J2219/00677 , B01J2219/00707 , B01J2219/00722 , B01J2219/00729 , C12Q1/6818 , C40B40/06 , C40B60/14 , C12Q2565/531 , C12Q2561/101
摘要： Methods and compositions for high-throughput identification of protein/nucleic acid binding pairs are provided. In the subject methods, a nucleic acid probe array, e.g., a molecular beacon probe array, is contacted with a target nucleic acid population to produce a hybridized array. The resultant hybridized array is then contacted with a population of proteins to produce a protein bound array. Any resultant array surface bound target nucleic acid/protein complexes are then detected to identify protein/nucleic acid binding pairs. In certain embodiments, the protein and/or nucleic acid members of the identified protein/nucleic acid binding pairs are further characterized. Also provided are systems and kits for use in practicing the subject methods. The subject invention finds use in a variety of different applications.
摘要翻译：提供了用于蛋白质/核酸结合对的高通量鉴定的方法和组合物。在本主题方法中，将核酸探针阵列（例如分子信标探针阵列）与靶核酸群体接触以产生杂交阵列。然后将所得杂交阵列与蛋白质群体接触以产生蛋白质结合阵列。然后检测任何得到的阵列表面结合的靶核酸/蛋白质复合物，以鉴定蛋白质/核酸结合对。在某些实施方案中，进一步表征鉴定的蛋白质/核酸结合对的蛋白质和/或核酸成员。还提供了用于实践主题方法的系统和工具包。本发明可用于各种不同的应用。

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