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    Identification of DNA fragments and structural variations
    62.
    发明授权
    Identification of DNA fragments and structural variations 有权
    鉴定DNA片段和结构变异

    公开(公告)号：US09514272B2

    公开(公告)日：2016-12-06

    申请号：US13649966

    申请日：2012-10-11

    Applicant: Complete Genomics, Inc.

    Inventor： Bahram Ghaffarzadeh Kermani ,  Radoje Drmanac ,  Oleg Alferov

    IPC: G01N33/50 ,  G06F19/22

    CPC classification number: G06F19/22

    Abstract: Various short reads can be grouped and identified as coming from a same long DNA fragment (e.g., by using wells with a relatively low-concentration of DNA). A histogram of the genomic coverage of a group of short reads can provide the edges of the corresponding long fragment (pulse). The knowledge of these pulses can provide an ability to determine the haploid genome and to identify structural variations.

    Abstract translation: 可以将各种短读数分组并鉴定为来自相同的长DNA片段（例如，通过使用具有相对低浓度DNA的孔）。 一组短读取的基因组覆盖的直方图可以提供对应的长片段（脉冲）的边缘。 这些脉冲的知识可以提供确定单倍体基因组并鉴定结构变化的能力。

    METHOD FOR HIGH THROUGHPUT SCREENING OF NUCLEIC ACIDS
    64.
    发明申请
    METHOD FOR HIGH THROUGHPUT SCREENING OF NUCLEIC ACIDS 有权
    核酸高通量筛选方法

    公开(公告)号：US20150368711A1

    公开(公告)日：2015-12-24

    申请号：US14839400

    申请日：2015-08-28

    Applicant: Complete Genomics, Inc.

    Inventor： Arnold Oliphant

    IPC: C12Q1/68 ,  G01N21/64

    CPC classification number: C12Q1/6874 ,  G01N21/6486 ,  G01N35/0099 ,  G01N2035/00158 ,  G01N2201/0461

    Abstract: A scalable reaction and detection system for automated high throughput sequencing of nucleic acids involving a combination of chemical processes and observation processes independent of the chemistry processes. Discrete functional units may be configured in a manner that allows the system to interchangeably utilize different sequencing reaction components in conjunction with discrete apparatus components for optical image collection and/or analysis.

    Abstract translation: 一种可扩展的反应和检测系统，用于核酸的自动化高通量测序，涉及独立于化学过程的化学过程和观察过程的组合。 离散功能单元可以以允许系统与用于光学图像收集和/或分析的分立装置组件可互换地利用不同排序反应组分的方式来配置。

    LONG FRAGMENT DE NOVO ASSEMBLY USING SHORT READS
    65.
    发明申请
    LONG FRAGMENT DE NOVO ASSEMBLY USING SHORT READS 审中-公开
    LONG FRAGMENT DE NOVO大会使用短篇小说阅读

    公开(公告)号：US20150057947A1

    公开(公告)日：2015-02-26

    申请号：US14467797

    申请日：2014-08-25

    Applicant: Complete Genomics, Inc.

    Inventor： Radoje Drmanac ,  Bahram Ghaffarzadeh Kermani

    IPC: G06F19/20

    Abstract: Techniques perform de novo assembly. The assembly can use labels that indicate origins of the nucleic acid molecules. For example, a representative set of labels identified from initial reads that overlap with a seed can be used. Mate pair information can be used. A sequence read that aligns to an end of a contig can lead to using the other sequence read of a mate pair, and the other sequence read can be used to determine which branch to use to extend, e.g., in an external cloud or helper contig. A kmer index can include labels indicating an origin of each of the nucleic acid molecules that include each kmer, memory addresses of the reads that correspond to each kmer in the index, and a position in each of the mate pairs that includes the kmer. Haploid seeds can also be determined using polymorphic loci identified in a population.

    Abstract translation: 技术执行从头装配。 该组件可以使用指示核酸分子起源的标记。 例如，可以使用从与种子重叠的初始读取中识别的代表性标签集合。 配对信息可以使用。 与对等体的末端对齐的序列读取可以导致使用配对对读取的其他序列，并且可以使用其他序列读取来确定用于扩展的分支，例如在外部云或辅助对象中 。 kmer指数可以包括指示每个核酸分子的来源的标签，其包括每个kmer，对应于索引中每个kmer的读取的存储器地址以及包括kmer的每个配对对中的位置。 单倍体种子也可以使用在群体中鉴定的多态性基因座来确定。

    IMAGING SYSTEMS WITH MOVABLE SCAN MIRRORS
    66.
    发明申请
    IMAGING SYSTEMS WITH MOVABLE SCAN MIRRORS 有权
    具有可移动扫描镜的成像系统

    公开(公告)号：US20140152888A1

    公开(公告)日：2014-06-05

    申请号：US13907801

    申请日：2013-05-31

    Applicant: Complete Genomics, Inc.

    Inventor： Bryan P. Staker ,  Craig E. Uhrich

    IPC: H04N5/225

    CPC classification number: H04N5/2251 ,  G02B21/16 ,  G02B21/367 ,  G02B27/646

    Abstract: An imaging system is provided wherein a positioning stage is translated with respect to an objective lens component and a scan mirror is repositioned while a two-dimensional image is made of a biochemical site on a substrate. In an example embodiment, an imaging system comprises a camera, an objective lens component, a positioning stage, and a scan mirror controllable by a servo system that synchronizes movement of the positioning stage and the tilting of the scan mirror so that the substrate image is maintained stable during imaging of the continuously moving positioning stage.

    Abstract translation: 提供了一种成像系统，其中定位台相对于物镜部件平移，并且扫描镜重新定位，同时二维图像由基底上的生物化学位置制成。 在一个示例实施例中，成像系统包括相机，物镜组件，定位台和可由伺服系统控制的扫描镜，该扫描镜可同步定位台的移动和扫描镜的倾斜，使得基底图像为 在连续移动的定位平台成像期间保持稳定。

    Method and system for imaging high density biochemical arrays with sub-pixel alignment
    67.
    发明授权
    Method and system for imaging high density biochemical arrays with sub-pixel alignment 有权
    用于对具有亚像素对准的高密度生物化学阵列进行成像的方法和系统

    公开(公告)号：US08660421B2

    公开(公告)日：2014-02-25

    申请号：US13856369

    申请日：2013-04-03

    Applicant: Complete Genomics, Inc.

    Inventor： Bryan P. Staker ,  Craig E. Uhrich

    IPC: G02B21/36

    CPC classification number: G02B21/365 ,  G01B11/272 ,  G02B21/002 ,  G02B21/025 ,  G02B21/361 ,  H04N5/37206 ,  H04N7/18

    Abstract: A method and associated system for imaging high density biochemical arrays comprises one or more imaging channels that share a common objective lens and a corresponding one or more time delay integration-type imaging cameras with optical alignment mechanisms that permit independent inter-channel and intra-channel adjustment of each of four degrees: X, Y, rotation and scale. The imaging channels are configured to independently examine different spectra of the image of the biochemical arrays.

    Abstract translation: 用于高密度生物化学阵列成像的方法和相关系统包括共享共同物镜的一个或多个成像通道和具有光学对准机构的相应的一个或多个时间延迟积分型成像相机，其允许独立的通道间和通道内 四度调整：X，Y，旋转和刻度。 成像通道被配置为独立地检查生物化学阵列的图像的不同光谱。

    TREATMENT FOR STABILIZING NUCLEIC ACID ARRAYS
    68.
    发明申请
    TREATMENT FOR STABILIZING NUCLEIC ACID ARRAYS 审中-公开
    用于稳定核酸序列的处理

    公开(公告)号：US20130178369A1

    公开(公告)日：2013-07-11

    申请号：US13664386

    申请日：2012-10-30

    Applicant: Complete Genomics, Inc.

    Inventor： Norman Lee Burns ,  Jay Willis Shafto

    IPC: G01N1/30

    CPC classification number: G01N1/30 ,  B01J19/0046 ,  B01J2219/00529 ,  B01J2219/00608 ,  B01J2219/00637 ,  B01J2219/00659 ,  B01J2219/00722 ,  C12Q1/6837

    Abstract: The present invention is directed to treatment of nucleic acid molecules that are attached or associated with solid supports for biochemical analysis, including nucleic acid sequencing. After loading on the solid support, the nucleic acid molecules are treated with a composition comprising a condensing agent, a volume excluding agent, or both, then treated with a composition comprising a protein.

    Abstract translation: 本发明涉及用于生物化学分析（包括核酸测序）的与固体支持物连接或相连的核酸分子的处理。 装载在固体支持物上之后，用包含缩合剂，体积排除剂或两者的组合物处理核酸分子，然后用包含蛋白质的组合物处理。

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