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    Systems and Methods for Sequence Data Alignment Quality Assessment
    401.
    发明申请
    Systems and Methods for Sequence Data Alignment Quality Assessment 审中-公开
    序列数据对齐质量评估的系统和方法

    公开(公告)号：US20160140291A1

    公开(公告)日：2016-05-19

    申请号：US15001389

    申请日：2016-01-20

    Applicant: LIFE TECHNOLOGIES CORPORATION

    Inventor： Zheng ZHANG ,  Sowmi UTIRAMERUR ,  Fiona HYLAND

    IPC: G06F19/24 ,  G06N7/00 ,  G06N3/12 ,  G06F19/22

    CPC classification number: G16B40/00 ,  G06N3/126 ,  G06N7/005 ,  G16B30/00

    Abstract: A computer-implemented method for classifying alignments of paired nucleic acid sequence reads is disclosed. A plurality of paired nucleic acid sequence reads is received, wherein each read is comprised of a first tag and a second tag separated by an insert region. Potential alignments for the first and second tags of each read to a reference sequence is determined, wherein the potential alignments satisfies a minimum threshold mismatch constraint. Potential paired alignments of the first and second tags of each read are identified, wherein a distance between the first and second tags of each potential paired alignment is within an estimated insert size range. An alignment score is calculated for each potential paired alignment based on a distance between the first and second tags and a total number of mismatches for each tag.

    Abstract translation: 公开了用于分类配对核酸序列读数的计算机实现的方法。 接收多个配对的核酸序列读取，其中每个读取包括由插入区域分隔的第一标签和第二标签。 确定每个读取到参考序列的第一和第二标签的潜在对准，其中所述电位对准满足最小阈值失配约束。 识别每个读取的第一和第二标签的潜在配对比对，其中每个潜在配对对准的第一和第二标签之间的距离在估计的插入尺寸范围内。 基于第一和第二标签之间的距离和每个标签的总失配数，针对每个潜在配对对齐计算对准分数。

    Nucleic acid amplification
    402.
    发明授权
    Nucleic acid amplification 有权

    公开(公告)号：US09334531B2

    公开(公告)日：2016-05-10

    申请号：US14023361

    申请日：2013-09-10

    Applicant: LIFE TECHNOLOGIES CORPORATION

    Inventor： Chieh-Yuan Li ,  David Ruff ,  Shiaw-Min Chen ,  Jennifer O'Neil ,  Rachel Kasinskas ,  Jonathan Rothberg ,  Bin Li ,  Kai Qin Lao

    IPC: C12Q1/68

    CPC classification number: C12N9/1252 ,  C12Q1/6846 ,  C12Q1/6853 ,  C12Q1/6855 ,  C12Q1/686 ,  C12Q1/6874 ,  C12Y207/07007 ,  C12Q2531/119 ,  C12Q2565/537

    Abstract: In some embodiments, the present teachings provide methods for nucleic acid amplification, comprising forming a reaction mixture, and subjecting the reaction mixture to conditions suitable for nucleic acid amplification. In some embodiments, methods for nucleic acid amplification include subjecting the nucleic acid to be amplified to partially denaturing conditions. In some embodiments, methods for nucleic acid amplification include amplifying without fully denaturing the nucleic acid that is amplified. In some embodiments, the methods for nucleic acid amplification employ an enzyme that catalyzes homologous recombination and a polymerase. In some embodiments, methods for nucleic acid amplification can be conducted in a single reaction vessel. In some embodiments, methods for nucleic acid amplification can be conducted in a single continuous liquid phase of a reaction mixture, without need for compartmentalization of the reaction mixture or immobilization of reaction components. In some embodiments, methods for nucleic acid amplification comprise a amplifying at least one polynucleotide onto a surface under isothermal amplification conditions, optionally in the presence of a polymer. The polymer can include a sieving agent and/or a diffusion-reducing agent.

    METHODS, SYSTEMS, AND COMPUTER-READABLE MEDIA FOR CALCULATING CORRECTED AMPLICON COVERAGES
    405.
    发明申请
    METHODS, SYSTEMS, AND COMPUTER-READABLE MEDIA FOR CALCULATING CORRECTED AMPLICON COVERAGES 审中-公开
    用于计算校正的AMPLICON封面的方法，系统和计算机可读介质

    公开(公告)号：US20160103957A1

    公开(公告)日：2016-04-14

    申请号：US14879533

    申请日：2015-10-09

    Applicant: LIFE TECHNOLOGIES CORPORATION

    Inventor： James VEITCH ,  Yiping ZHAN

    IPC: G06F19/24 ,  G06F19/22 ,  C12Q1/68

    CPC classification number: G16B40/00 ,  C12Q1/6869 ,  G16B20/00 ,  G16B30/00

    Abstract: Methods, systems, and computer-readable media are disclosed for calculating corrected amplicon coverages. One method includes: mapping a plurality of reads of a plurality of amplicons based on amplified target regions of a sample suspected of having one or more genetic abnormalities to a reference sequence that includes one or more nucleic acid sequences corresponding to the amplified target regions; calculating amplicon coverages and total reads, wherein amplicon coverages is a number of reads mapped to an amplicon, and total reads is a number of mapped reads; and calculating corrected amplicon coverages based on the calculated amplicon coverages and calculated total reads by applying a batch effect correction.

    Abstract translation: 公开了用于计算校正的扩增子覆盖物的方法，系统和计算机可读介质。 一种方法包括：基于被怀疑具有一个或多个遗传异常的样本的扩增的目标区域将多个扩增子的多个读取映射到包括与扩增的目标区域相对应的一个或多个核酸序列的参考序列; 计算扩增子覆盖率和总读数，其中扩增子覆盖是映射到扩增子的多个读取，并且总读取是映射读取的数量; 并且通过应用批量效应校正，基于计算的扩增子覆盖率和计算的总读数计算校正的扩增子覆盖率。

    Online Protocol Community
    408.
    发明申请
    Online Protocol Community 审中-公开

    公开(公告)号：US20160077727A1

    公开(公告)日：2016-03-17

    申请号：US14860561

    申请日：2015-09-21

    Applicant: LIFE TECHNOLOGIES CORPORATION

    Inventor： Srinivasa R. Nalabolu

    IPC: G06F3/0484 ,  G06F17/24 ,  G06F17/22

    CPC classification number: G06F3/04847 ,  G06F17/2247 ,  G06F17/243 ,  G06Q10/10 ,  G06Q10/101 ,  G06Q50/01

    Abstract: Provided herein is a computer-implemented method of personalizing a protocol in an online community of a plurality of users. The computer-implemented method includes providing a first protocol selected by a first user in the online community and receiving a request from the first user to modify the first protocol. The method further includes providing a set of editable fields to the first user for inputting a first modification, where the set of editable fields include a copy of dynamic content from the first protocol. The method includes generating a second protocol in response to the user inputting a first modification into one editable field of the set of editable fields, wherein the second protocol is based on the first protocol and includes the first modification.

    Chemical Sensor with Consistent Sensor Surface Areas
    409.
    发明申请
    Chemical Sensor with Consistent Sensor Surface Areas 有权
    化学传感器具有一致的传感器表面区域

    公开(公告)号：US20160077045A1

    公开(公告)日：2016-03-17

    申请号：US14939101

    申请日：2015-11-12

    Applicant: LIFE TECHNOLOGIES CORPORATION

    Inventor： Keith G. FIFE ,  Jordan OWENS ,  Shifeng LI ,  James BUSTILLO

    IPC: G01N27/414 ,  H01L21/28

    CPC classification number: G01N27/414 ,  B01L3/502761 ,  B01L2200/0668 ,  B01L2300/0636 ,  B01L2300/0877 ,  G01N27/4145 ,  G01N27/4148 ,  H01L21/28273

    Abstract: A chemical sensor is described. The chemical sensor includes a chemically-sensitive field effect transistor including a floating gate conductor having an upper surface. A material defines an opening extending to the upper surface of the floating gate conductor, the material comprising a first dielectric underlying a second dielectric. A conductive element contacts the upper surface of the floating gate conductor and extending a distance along a sidewall of the opening.

    Abstract translation: 描述了化学传感器。 化学传感器包括具有上表面的浮栅导体的化学敏感场效应晶体管。 材料限定了延伸到浮动栅极导体的上表面的开口，该材料包括位于第二电介质下面的第一电介质。 导电元件接触浮栅导体的上表面并沿着开口的侧壁延伸一段距离。

    E-Commerce Systems and Methods
    410.
    发明申请
    E-Commerce Systems and Methods 审中-公开
    电子商务系统与方法

    公开(公告)号：US20160063584A1

    公开(公告)日：2016-03-03

    申请号：US14837811

    申请日：2015-08-27

    Applicant: LIFE TECHNOLOGIES CORPORATION

    Inventor： Siamak Baharloo ,  James Gilmore ,  Michael Stapleton ,  Anthony Stevens ,  Martin Naley ,  Nicole Brockway

    IPC: G06Q30/06 ,  H04L29/06 ,  H04L29/08

    CPC classification number: G06Q30/0607 ,  G06Q30/06 ,  G06Q30/0603 ,  G06Q30/0625 ,  G06Q30/0633 ,  H04L67/02 ,  H04L69/03

    Abstract: The invention is in general directed to methods and processes for generating revenue via an electronic commerce website. The invention is also directed to methods of processing product orders and selling product related to protocols, workflows, or other applications. The invention also contemplates methods for selling products, which include previously ordered products, related products, substitute products, and equivalent products, including but not limited to equivalent protocol products, matched reagent sets, kits, and biomodules for practicing said protocols and equivalent protocols.

    Abstract translation: 本发明一般涉及通过电子商务网站产生收入的方法和过程。 本发明还涉及处理产品订单并销售与协议，工作流程或其他应用相关的产品的方法。 本发明还考虑了销售产品的方法，包括先前订购的产品，相关产品，替代产品和等同产品，包括但不限于等效的协议产品，匹配的试剂盒，试剂盒和用于实施所述协议和等效协议的生物模块。

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