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    NUCLEIC ACID ANALYSIS BY RANDOM MIXTURES OF NON-OVERLAPPING FRAGMENTS
    22.
    发明申请
    NUCLEIC ACID ANALYSIS BY RANDOM MIXTURES OF NON-OVERLAPPING FRAGMENTS 有权
    非叠加片段随机混合物的核酸分析

    公开(公告)号：US20130310264A1

    公开(公告)日：2013-11-21

    申请号：US13954778

    申请日：2013-07-30

    申请人： Callida Genomics, Inc.

    发明人： Radoje Drmanac

    IPC分类号： C12Q1/68

    CPC分类号： C12Q1/6874 ,  C07H21/04 ,  C07K1/047 ,  C12Q1/6806 ,  C12Q1/682 ,  C12Q1/6837 ,  C12Q1/6869 ,  C12Q2525/151 ,  C12Q2525/313 ,  C12Q2531/125 ,  C12Q2565/513 ,  G01N15/1404 ,  G01N15/1434 ,  Y10S977/778 ,  Y10S977/789 ,  Y10S977/792 ,  Y10S977/88 ,  Y10S977/882 ,  C12Q2521/307 ,  C12Q2525/161 ,  C12Q2535/122 ,  C12Q2563/179 ,  C12Q2565/514

    摘要： The invention provides methods and kits for ordering sequence information derived from one or more target polynucleotides. In one aspect, one or more tiers or levels of fragmentation and aliquoting are generated, after which sequence information is obtained from fragments in a final level or tier. Each fragment in such final tier is from a particular aliquot, which, in turn, is from a particular aliquot of a prior tier, and so on. For every fragment of an aliquot in the final tier, the aliquots from which it was derived at every prior tier is known, or can be discerned. Thus, identical sequences from overlapping fragments from different aliquots can be distinguished and grouped as being derived from the same or different fragments from prior tiers. When the fragments in the final tier are sequenced, overlapping sequence regions of fragments in different aliquots are used to register the fragments so that non-overlapping regions are ordered. In one aspect, this process is carried out in a hierarchical fashion until the one or more target polynucleotides are characterized, e.g. by their nucleic acid sequences, or by an ordering of sequence segments, or by an ordering of single nucleotide polymorphisms (SNPs), or the like.

    摘要翻译： 本发明提供了用于排序从一个或多个目标多核苷酸衍生的序列信息的方法和试剂盒。 在一个方面，产生一个或多个分层或等级的碎片和等分试样，之后从最终级别或层级的片段获得序列信息。 这样的最后一层中的每个片段都来自特定的等分试样，而这些等分试样又是来自先前层的特定等分试样，等等。 对于最后一层中的等分试样的每个片段，从每个先前的层次派生的等分试样是已知的，或者可以被辨别出来。 因此，来自不同等分试样的重叠片段的相同序列可以被区分并分组为从与先前层相同或不同的片段衍生的。 当最终层中的片段被排序时，使用不同等分试样的片段的重叠序列区域来登记片段，使得非重叠区域被排序。 在一个方面，该方法以分级方式进行，直到一个或多个目标多核苷酸被表征为例如。 通过其核酸序列，或通过序列片段的排序，或通过单核苷酸多态性（SNP）等的排序。

    Method for detecting and quantifying poly(A) RNA and mRNA
    23.
    发明授权
    Method for detecting and quantifying poly(A) RNA and mRNA 失效
    检测和定量聚（A）RNA和mRNA的方法

    公开(公告)号：US08586304B2

    公开(公告)日：2013-11-19

    申请号：US13504377

    申请日：2010-12-01

    申请人： Nan Fang

    发明人： Nan Fang

    IPC分类号： C12Q1/68 ,  C12P19/34 ,  C12M1/34 ,  C07H19/00 ,  C07H21/02 ,  C07H21/04

    CPC分类号： C12Q1/6818 ,  C12Q1/6823 ,  C12Q2565/1015 ,  C12Q2525/173 ,  C12Q2521/325 ,  C12Q2545/101 ,  C12Q2521/307

    摘要： The present invention relates to a method for detecting and/or for quantifying poly(A) RNA and/or mRNA, wherein a poly(dT) oligonucleotide which features a fluorescent dye and also a quencher is hybridized to the nucleic acid to be detected. Non-hybridized poly(dT) oligonucleotide is degraded by an added nuclease, and as a result, fluorescently labelled nucleotides are released and the resulting fluorescent signal is measured.

    摘要翻译： 本发明涉及用于检测和/或定量聚（A）RNA和/或mRNA的方法，其中特征在于荧光染料和猝灭剂的聚（dT）寡核苷酸与待检测的核酸杂交。 非杂交的聚（dT）寡核苷酸被加入的核酸酶降解，结果荧光标记的核苷酸被释放，并测量所得到的荧光信号。

    ARRAY-BASED PROXIMITY LIGATION ASSOCIATION ASSAYS
    26.
    发明申请
    ARRAY-BASED PROXIMITY LIGATION ASSOCIATION ASSAYS 审中-公开
    基于阵列的临时协调协会测试

    公开(公告)号：US20120277113A1

    公开(公告)日：2012-11-01

    申请号：US13509721

    申请日：2010-11-17

    申请人： Ruo-Pan Huang

    发明人： Ruo-Pan Huang

    IPC分类号： C40B30/04 ,  C07H21/04 ,  C40B40/06

    CPC分类号： G01N33/582 ,  C12Q1/6816 ,  C12Q1/6834 ,  G01N33/58 ,  G01N2458/10 ,  C12Q2525/161 ,  C12Q2561/125 ,  C12Q2565/501 ,  C12Q2521/307 ,  C12Q2531/113

    摘要： Embodiments of this disclosure encompass methods, systems and probes for the detection of a target analyte in a sample. The method uses of the detection of at least two distinct sites on an analyte molecule, or the pairing of two distinct sites on two adjacent and contacting molecules, the sites being integral to the structure of a single molecule or positioned near one another due to the three-dimensional structure of the polypeptide. At least one of the detectable sites may be formed by a modification of a larger molecule. The methods of detecting a target analyte comprise contacting a sample with a pair of probes, each probe comprising a binding moiety capable of specifically binding to a target analyte or a tag thereon, and an oligonucleotide tail that comprises a PCR initiator region proximal to the target analyte binding moiety, a barcoding region uniquely associated with the target analyte binding moiety, and a connector-hybridizing region complementary to a region of a connector oligonucleotide; hybridizing a connector oligonucleotide to the connector-hybridizing regions of the probes and ligating the connector-hybridizing regions of the probes; PCR amplifying the the ligated oligonucleotide tails; hybridizing the amplification product with a substrate-immobilized oligonucleotide that as regions complementary to the barcoding regions of the probes; digesting any single-strand DNA molecule; hybridizing a signaling oligonucleotide to the product of the previous step; and detecting the signal, thereby detecting the presence of the analyte in the sample.

    摘要翻译： 本公开的实施例包括用于检测样品中的目标分析物的方法，系统和探针。 该方法使用在分析物分子上检测至少两个不同位点，或者在两个相邻和接触分子上的两个不同位点的配对，该位点与单个分子的结构成一体，或者彼此靠近彼此定位 多肽的三维结构。 可以通过更大分子的修饰形成至少一个可检测位点。 检测目标分析物的方法包括使样品与一对探针接触，每个探针包含能够特异性结合靶分析物或其上的标签的结合部分，以及包含靠近靶的PCR引发剂区域的寡核苷酸尾 分析物结合部分，与靶分析物结合部分唯一相关的条形码区域，以及与连接寡核苷酸区域互补的连接器 - 杂交区域; 将连接寡核苷酸与探针的连接器杂交区域杂交并连接探针的连接器杂交区域; PCR扩增连接的寡核苷酸尾部; 将扩增产物与作为与探针的条形码区域互补的区域的固定基底物的寡核苷酸杂交; 消化任何单链DNA分子; 将信号寡核苷酸与前一步骤的产物杂交; 并检测信号，从而检测样品中分析物的存在。

    GENOME ANALYSIS USING A NICKING ENDONUCLEASE
    30.
    发明申请
    GENOME ANALYSIS USING A NICKING ENDONUCLEASE 审中-公开
    使用内分泌酶的基因组分析

    公开(公告)号：US20100330556A1

    公开(公告)日：2010-12-30

    申请号：US12495199

    申请日：2009-06-30

    申请人： Brian Jon Peter ,  Amir Ben-Dor ,  Zohar Yakhini ,  Holly Hogrefe

    发明人： Brian Jon Peter ,  Amir Ben-Dor ,  Zohar Yakhini ,  Holly Hogrefe

    IPC分类号： C12Q1/68

    CPC分类号： C12Q1/6809 ,  C12Q1/683 ,  C12Q1/6858 ,  C12Q2535/101 ,  C12Q2523/303 ,  C12Q2521/307

    摘要： A method of genome analysis is provided. In certain embodiments, the method of comprises: a) contacting a genomic sample comprising a double-stranded DNA with a site-specific nicking endonuclease to provide a nicked double-stranded DNA comprising a plurality of nick sites, in which the nicking endonuclease nicks a site adjacent to a variable nucleotide; b) contacting the nicked double-stranded DNA with a polymerase in the presence of a nucleotide composition comprising a first labeled nucleotide comprising a first label, thereby producing a labeled double-stranded DNA that is not labeled at every nick site; c) stretching out the labeled double-stranded DNA to provide a stretched, labeled double-stranded DNA; and d) imaging the stretched, labeled double-stranded DNA to identify a labeling pattern on the stretched labeled double-stranded DNA.

    摘要翻译： 提供了一种基因组分析方法。 在某些实施方案中，所述方法包括：a）将包含双链DNA的基因组样品与位点特异性切口内切核酸酶接触以提供包含多个切口位点的切口双链DNA，其中所述切口内切核酸酶切除 邻近可变核苷酸的位点; b）在含有包含第一标记的第一标记核苷酸的核苷酸组合物存在的情况下使所述切口双链DNA与聚合酶接触，从而产生未在每个切口位点标记的标记的双链DNA; c）拉伸标记的双链DNA以提供拉伸的标记的双链DNA; 和d）对拉伸的标记的双链DNA进行成像，以鉴定拉伸标记的双链DNA上的标记图谱。