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    • 1. 发明申请
    • Compositions and methods related to solid phase sequence detection and genotyping
    • 与固相序列检测和基因分型有关的组合物和方法
    • US20110195410A1
    • 2011-08-11
    • US12928259
    • 2010-12-07
    • Robert E. Wagner, JR.
    • Robert E. Wagner, JR.
    • C12Q1/68
    • C12Q1/6827C12Q2533/107C12Q2565/519
    • The present invention provides improved compositions and methods of sequence detection and single nucleotide (“SNP”) genotyping. The methods of the present invention are related to combining sequence or allelic specific ligation on a solid phase platform with specific and efficient solid phase signal amplification. The methods for sequence detection include a first, second and third oligonucleotide. The methods of SNP genotyping include four oligonucleotides for SNPs associated with two alleles and additional oligonucleotides may be added for SNPs associated with more than two alleles. The usefulness of the present method is that it results in the determination of thousands of genotypes simply, rapidly and inexpensively on a solid support from a single genomic DNA sample.
    • 本发明提供改进的组合物和序列检测和单核苷酸(“SNP”)基因分型的方法。 本发明的方法涉及将固相平台上的序列或等位基因特异性连接与特异性和有效的固相信号扩增相结合。 用于序列检测的方法包括第一,第二和第三寡核苷酸。 SNP基因分型的方法包括与两个等位基因相关的SNP的四个寡核苷酸,并且可以添加与两个以上等位基因相关的SNP的另外的寡核苷酸。 本发明方法的有用性是它能够简单,快速和廉价地测定来自单一基因组DNA样品的固体支持物上千种基因型。
    • 2. 发明申请
    • Method for genotyping DNA tandem repeat sequences
    • DNA串联重复序列的基因分型方法
    • US20100196893A1
    • 2010-08-05
    • US12589022
    • 2009-10-15
    • Uwe R. MüllerRobert E. Wagner, JR.
    • Uwe R. MüllerRobert E. Wagner, JR.
    • C12Q1/68
    • C12Q1/6827C12Q2537/157C12Q2533/107C12Q2521/507
    • The present invention provides methods for determining the number of tandem repeat units in a region of double stranded DNA based on the use of RecA-like recombinase protein and oligonucleotide ligation. The methods of the present invention provide RecA coated, specific DNA oligonucleotide probes (RecA filaments) for homology searching in duplex DNA where the location of homologous sequences results in the formation of D-loop structures containing a duplex region comprising the oligonucleotide probe and one strand of the target DNA. The present invention further provides sets of oligonucleotide probes (ligation partners) selected to have sequence complementary to non-repeat sequence flanking a region of tandem repeats and sequence complementary to varying numbers of repeat units such that only that pair of oligonucleotides that can be aligned, via RecA mediated homology searching, with the target sequence such that their terminal bases are paired with adjacent nucleotides in the target sequence will be substrates for ligation. Thus, the present invention provides methods whereby successful ligation is diagnostic of the number of repeat units in the target DNA sequence. Also disclosed are compositions and kits useful for practicing the foregoing methods.
    • 本发明提供了基于使用RecA样重组酶蛋白和寡核苷酸连接来确定双链DNA区域中串联重复单元数目的方法。 本发明的方法提供了用于在双链DNA中进行同源性搜索的RecA包被的特异性DNA寡核苷酸探针(RecA细丝),其中同源序列的位置导致形成含有包含寡核苷酸探针和一条链的双链体区的D-环结构 的目标DNA。 本发明进一步提供寡核苷酸探针(连接对象)的集合,所述寡核苷酸探针(连接对体)选择为具有与重复序列侧翼的序列互补的序列,并且与不同数量的重复单元互补的序列,使得只有所述可对齐的寡核苷酸, 通过RecA介导的同源性搜索,靶序列使得它们的末端碱基与靶序列中的相邻核苷酸配对将是用于连接的底物。 因此,本发明提供了成功连接是诊断目标DNA序列中重复单元数目的方法。 还公开了可用于实践上述方法的组合物和试剂盒。
    • 4. 发明授权
    • Sequentially processing data in a cached data storage system
    • 在缓存的数据存储系统中连续处理数据
    • US5134563A
    • 1992-07-28
    • US407078
    • 1989-09-14
    • Gerald E. TaylerRobert E. Wagner
    • Gerald E. TaylerRobert E. Wagner
    • G06F12/08
    • G06F12/0866G06F12/0862G06F2212/312G06F2212/6026
    • The disclosure relates to sequential performance of a cached data storage subsystem with a minimal control signal processing. Sequential access is first detected by monitoring and examining the quantity of data accessed per unit of data storage (track) across a set of contiguously addressable tracks. Since the occupancy of the data in the cache is usually time limited, this examination provides an indication of the rate of sequential processing for a data set, i.e., a data set is being processed usually in contiguously addressable data storage units of a data storage system. Based upon the examination of a group of the tracks in a cache, the amount of data to be promoted to the cache from a backing store in anticipation of future host processor references is optimizied. A promotion factor is calculated by combining the access extents monitored in the individual data storage areas and is expressed in a number of tracks units to be promoted. The examination of the group of tracks units and the implementation of the data promotion and demotion (early cast-out) is synchronized which results in a synergistic effect for increasing throughput of the cache for sequentially-processed data. A limit of promotion is determined to create a window of sequential data processing.
    • 本公开涉及具有最小控制信号处理的缓存数据存储子系统的顺序性能。 首先通过监视和检查在一组可连续寻址的轨道上的每单位数据存储(轨道)访问的数据量来首先检测顺序访问。 由于高速缓存中的数据的占用通常是时间限制的,所以该检查提供了数据集的顺序处理速率的指示,即数据集正在通过数据存储系统的连续可寻址数据存储单元进行处理 。 基于对高速缓存中的一组轨道的检查,优化了预期将来的主机处理器引用将从后备存储器升级到高速缓存的数据量。 通过组合在各个数据存储区域中监视的访问盘区来计算促销因子,并且以要提升的多个轨道单元表示。 跟踪单元的检查和数据升级和降级(早期退出)的实现被同步,这导致对于递增的缓存的吞吐量的顺序处理的数据的协同效应。 确定促销限制以创建顺序数据处理的窗口。
    • 6. 发明授权
    • RecA assisted detection of mutations, single nucleotide polymorphisms and specific sequences
    • RecA辅助检测突变,单核苷酸多态性和特异性序列
    • US07244562B2
    • 2007-07-17
    • US10283243
    • 2002-10-30
    • Robert E. Wagner, Jr.
    • Robert E. Wagner, Jr.
    • C07H21/04C12P19/34C12Q1/68
    • C12Q1/6858C12Q2533/101C12Q2533/107C12Q2521/507
    • A method for detecting a specific sequence, a mutation and/or a polymorphisms, including a single nucleotide polymorphism (SNP), is based on the use of RecA-like recombinase protein and primer extension (PE) or oligonucleotide ligation assays (OLA). RecA coated, specific DNA oligonucleotide probes (RecA filaments) are used for homology searching in duplex DNA. Location of homologous sequences results in the formation of D-loop or double D-loop structures containing a duplex regions comprising the oligonucleotide probe and one strand of the target DNA. In the case of the PE methods, probes are selected to terminate with their 3′ end adjacent to the site of mutation or SNP such that a single nucleotide or terminator addition to the primer will be diagnostic of the mutation or SNP. In the case of the OLA methods, sets of oligonucleotide probes (ligation partners) are selected to have adjacent ends terminate at, or adjacent to, the site of mutation or SNP such that ligation is possible only when both ends are correctly base-paired. Successful ligation is diagnostic of the specific sequence, mutation or SNP. Also disclosed are compositions and kits useful for practicing the foregoing methods.
    • 用于检测特异性序列,突变和/或多态性(包括单核苷酸多态性(SNP))的方法是基于RecA样重组酶蛋白和引物延伸(PE)或寡核苷酸连接测定(OLA)的使用。 RecA包被的特异性DNA寡核苷酸探针(RecA细丝)用于双链DNA的同源性检索。 同源序列的位置导致形成包含寡核苷酸探针和目标DNA的一条链的双链区的D环或双D环结构。 在PE方法的情况下,选择探针以其与突变位点或SNP相邻的3'末端终止,使得加入引物的单个核苷酸或终止子将被诊断为突变或SNP。 在OLA方法的情况下,选择寡核苷酸探针(连接对象)的集合以使相邻末端终止于突变或SNP位点或邻近突变位点或SNP,使得仅当两端正确碱基配对时才可能进行连接。 成功连接是诊断特异性序列,突变或SNP。 还公开了可用于实践上述方法的组合物和试剂盒。
    • 10. 发明授权
    • Use of immobilized mismatch binding protein for detection of mutations
and polymorphisms, and allele identification
    • 使用固定化的错配结合蛋白检测突变和多态性,以及等位基因鉴定
    • US6114115A
    • 2000-09-05
    • US431081
    • 1995-04-28
    • Robert E. Wagner, Jr.
    • Robert E. Wagner, Jr.
    • G01N33/566C07H21/04C07K14/195C07K17/04C12N15/09C12Q1/68C12P19/34
    • C12Q1/6858C12Q1/6827
    • A method for detecting mutations, such as a single base change or an addition or deletion of about one to four base pairs, is based on the use of an immobilized DNA mismatch-binding protein, such as MutS, which binds to a nucleic acid hybrid having a single base mismatch or unpaired base or bases, thereby allowing the detection of mutations involving as little as one base change in a nucleotide sequence. Such a method is useful for diagnosing a variety of important disease states or susceptibilities, including the presence of a mutated oncogene and the presence of DNA containing triplet repeat sequences which characterize several genetic diseases including fragile X syndrome. The present method is used to isolate or remove by affinity chromatography duplex DNA molecules containing mismatches such as error-containing molecules in PCR-amplified DNA samples. Also provided are compositions and kits useful for practicing the methods of the present invention.
    • 用于检测突变(例如单碱基变化或约1-4个碱基对的添加或缺失)的方法是基于使用固定化的DNA错配结合蛋白(例如MutS),其结合核酸杂交体 具有单碱基错配或不成对的碱基或碱基,从而允许检测涉及核苷酸序列中少至一个碱基变化的突变。 这种方法可用于诊断各种重要的疾病状态或易感性,包括突变致癌基因的存在以及表征几种遗传疾病(包括脆性X综合征)的含有三重重复序列的DNA的存在。 本方法用于在PCR扩增的DNA样品中通过亲和色谱双链DNA分子分离或除去错配,如含错误的分子。 还提供了可用于实践本发明的方法的组合物和试剂盒。