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    Iterative resequencing
    4.
    发明授权
    Iterative resequencing 失效
    迭代重排序

    公开(公告)号：US07144699B2

    公开(公告)日：2006-12-05

    申请号：US09381480

    申请日：1998-03-19

    Applicant: Mark Chee

    Inventor： Mark Chee

    IPC: C12Q1/68 ,  C12M1/36 ,  C07H21/04

    CPC classification number: C12Q1/6874

    Abstract: The invention provides iterative methods of analyzing a target nucleic acid that represents a variant of a reference nucleic acid. An array of probes is designed to be complementary to an estimated sequence of a target nucleic acid. The array of probes is then hybridized to the target nucleic acid. The target sequence is reestimated from hybridization pattern of the array to the target nucleic acid. A further array of probes is then designed to be complementary to the reestimated sequence, and this array is used to obtain a further reestimate of the sequence of the target nucleic acid. By performing iterative cycles of array design and target sequence estimation, the estimated sequence of the target converges with the true sequence.

    Abstract translation: 本发明提供了分析代表参考核酸的变体的靶核酸的迭代方法。 探针阵列设计成与靶核酸的估计序列互补。 然后将探针阵列与目标核酸杂交。 靶序列从阵列的杂交模式重新估计为靶核酸。 然后将另外的探针阵列设计为与重新估计的序列互补，并且该阵列用于获得靶核酸序列的进一步重新估计。 通过执行阵列设计和靶序列估计的迭代循环，目标的估计序列与真实序列收敛。

    Nucleic acid affinity columns
    5.
    发明申请
    Nucleic acid affinity columns 审中-公开
    核酸亲和柱

    公开(公告)号：US20060204991A1

    公开(公告)日：2006-09-14

    申请号：US11360146

    申请日：2006-02-22

    Applicant: Robert Lipshutz ,  MacDonald Morris ,  Mark Chee ,  Thomas Gingeras

    Inventor： Robert Lipshutz ,  MacDonald Morris ,  Mark Chee ,  Thomas Gingeras

    IPC: C12Q1/68 ,  C12P19/34

    CPC classification number: C12Q1/6806 ,  B01J2219/00608 ,  B01J2219/0061 ,  B01J2219/00612 ,  B01J2219/00619 ,  B01J2219/00621 ,  B01J2219/00626 ,  B01J2219/0063 ,  B01J2219/00637 ,  B01J2219/00641 ,  B01J2219/00659 ,  B01J2219/00722 ,  C12Q1/6809 ,  C12Q1/6837 ,  C40B40/06 ,  C12Q2565/107 ,  C12Q2525/155

    Abstract: This invention provides nucleic acid affinity matrices that bear a large number of different nucleic acid affinity ligands allowing the simultaneous selection and removal of a large number of preselected nucleic acids from the sample Methods of producing such affinity matrices are also provided In general the methods involve the steps of a) providing a nucleic acid amplification template array comprising a surface to which are attached at least 50 oligonucleotides having different nucleic acid sequences, and wherein each different oligonucleotide is localized in a predetermined region of said surface, the density of said oligonucleotides is greater than about 60 different oligonucleotides per 1 cm2, and all of said different oligonucleotides have an identical terminal 3′ nucleic acid sequence and an identical terminal 5′ nucleic acid sequence b) amplifying said multiplicity of oligonucleotides to provide a pool of amplified nucleic acids, and c) attaching the pool of nucleic acids to a solid support

    Abstract translation: 本发明提供了携带大量不同核酸亲和配体的核酸亲和基质，允许从样品中同时选择和除去大量预选择的核酸。还提供了产生这种亲和基质的方法一般来说，该方法涉及 步骤a）提供核酸扩增模板阵列，其包含与至少50个具有不同核酸序列的寡核苷酸连接的表面，并且其中每个不同的寡核苷酸定位在所述表面的预定区域中，所述寡核苷酸的密度较大 每1cm 2超过约60个不同的寡核苷酸，并且所有所述不同的寡核苷酸具有相同的末端3'核酸序列和相同的末端5'核酸序列b）扩增所述多重寡核苷酸以提供 一组扩增的核酸，以及c）附着核酸池 酸固体支持物

    Expression monitoring to high density oligonucleotide arrays
    9.
    发明申请
    Expression monitoring to high density oligonucleotide arrays 审中-公开
    对高密度寡核苷酸阵列的表达监测

    公开(公告)号：US20050202500A1

    公开(公告)日：2005-09-15

    申请号：US11118974

    申请日：2005-04-28

    Applicant: David Lockhart ,  Eugene Brown ,  Gordon Wong ,  Mark Chee ,  Thomas Gingeras

    Inventor： David Lockhart ,  Eugene Brown ,  Gordon Wong ,  Mark Chee ,  Thomas Gingeras

    IPC: G01N33/53 ,  C12N15/09 ,  C12Q1/68 ,  G01N15/14 ,  G01N37/00 ,  C12P19/34 ,  G01N33/48 ,  G01N33/50 ,  G06F19/00

    CPC classification number: C12Q1/6809 ,  C12Q1/6837 ,  G01N15/1475 ,  C12Q2565/507

    Abstract: This invention provides methods of monitoring the expression levels of a multiplicity of genes. The methods involve hybridizing a nucleic acid sample to a high density array of oligonucleotide probes where the high density array contains oligonucleotide probes complementary to subsequences of target nucleic acids in the nucleic acid sample. In one embodiment, the method involves providing a pool of target nucleic acids comprising RNA transcripts of one or more target genes, or nucleic acids derived from the RNA transcripts, hybridizing said pool of nucleic acids to an array of oligonucleotide probes immobilized on surface, where the array comprising more than 100 different oligonucleotides and each different oligonucleotide is localized in a predetermined region of the surface, the density of the different oligonucleotides is greater than about 60 different oligonucleotides per 1 cm2, and the olignucleotide probes are complementary to the RNA transcripts or nucleic acids derived from the RNA transcripts; and quantifying the hybridized nucleic acids in the array.

    Abstract translation: 本发明提供监测多种基因的表达水平的方法。 所述方法包括将核酸样品与寡核苷酸探针的高密度阵列杂交，其中高密度阵列含有与核酸样品中靶核酸的子序列互补的寡核苷酸探针。 在一个实施方案中，所述方法包括提供包含一个或多个靶基因的RNA转录物或衍生自RNA转录物的核酸的靶核酸库，将所述核酸库与固定在表面上的寡核苷酸探针阵列杂交，其中 包含超过100种不同寡核苷酸的阵列和每种不同的寡核苷酸定位在表面的预定区域中，不同寡核苷酸的密度大于每1cm 2大约60个不同的寡核苷酸，并且寡核苷酸 探针与衍生自RNA转录物的RNA转录物或核酸互补; 并量化阵列中的杂交核酸。

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