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公开(公告)号：US08895249B2
公开(公告)日：2014-11-25
申请号：US13783043
申请日：2013-03-01
Applicant: Illumina, Inc.
Inventor： Min-Jui Richard Shen , Jonathan Mark Boutell , Kathryn M. Stephens , Mostafa Ronaghi , Kevin Gunderson , Bala Murali Venkatesan , M. Shane Bowen , Kandaswamy Vijayan
CPC classification number: C12Q1/6848 , B01J19/0046 , B01J2219/00585 , B01J2219/00587 , B01J2219/00608 , B01J2219/00621 , B01J2219/00637 , B01J2219/00653 , B01J2219/00675 , B01J2219/00722 , C12Q1/6844 , C12Q1/6874 , C12Q2521/507 , C12Q2527/101 , C12Q2527/113 , C12Q2535/122 , C12Q2565/513 , C12Q2565/537
Abstract: A method including (a) providing an amplification reagent including an array of sites, and a solution having different target nucleic acids; and (b) reacting the amplification reagent to produce amplification sites each having a clonal population of amplicons from a target nucleic acid from the solution. The reacting can include simultaneously transporting the nucleic acids to the sites at an average transport rate, and amplifying the nucleic acids that transport to the sites at an average amplification rate, wherein the average amplification rate exceeds the average transport rate. The reacting can include producing a first amplicon from a nucleic acid that transports to each of the sites, and producing subsequent amplicons from the nucleic acid or from the first amplicon, wherein the average rate at which the subsequent amplicons are generated exceeds the average rate at which the first amplicon is generated.
Abstract translation: 一种方法，包括（a）提供包含位点阵列的扩增试剂和具有不同靶核酸的溶液; 和（b）使扩增试剂反应以产生每个具有来自溶液的靶核酸的扩增子的克隆群的扩增位点。 反应可以包括以平均传输速率同时将核酸输送到位点，以及以平均扩增速率扩增转运到位点的核酸，其中平均扩增速率超过平均传输速率。 该反应可以包括从转运到每个位点的核酸产生第一扩增子，并产生来自核酸或第一扩增子的后续扩增子，其中后续扩增子产生的平均速率超过在 其中生成第一个扩增子。
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22.发明公开公开(公告)号：US20240287578A1
公开(公告)日：2024-08-29
申请号：US18413996
申请日：2024-01-16
Applicant: Illumina, Inc.
Inventor： Niall Anthony Gormley , Jonathan Mark Boutell , Aathavan Karunakaran
IPC: C12Q1/6806 , C12Q1/34 , G16B30/00
CPC classification number: C12Q1/6806 , C12Q1/34 , G16B30/00
Abstract: The invention relates to methods of detecting modified cytosines in nucleic acid sequences.
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公开(公告)号：US20240003057A1
公开(公告)日：2024-01-04
申请号：US18368496
申请日：2023-09-14
Applicant: Illumina, Inc.
Inventor： Molly He , Michael Previte , Misha Golynskiy , Matthew William Kellinger , Sergio Peisajovich , Jonathan Mark Boutell
CPC classification number: C40B50/16 , B01L3/5085 , B01J19/0046 , B01L3/54 , C40B20/04 , C12N15/1062 , C12N15/1065 , C12N15/1075 , C12N15/1068 , B01L2300/021 , B01J2219/00317 , B01J2219/00459 , B01J2219/005 , B01J2219/00527 , B01J2219/00547 , B01J2219/00572 , B01J2219/00626 , B01J2219/00743
Abstract: A method of characterizing candidate agents including steps of (a) providing a library of candidate agents attached to nucleic acid tags; (b) contacting the library with a solid support to attach the candidate agents to the solid support, whereby an array of candidate agents is formed; (c) contacting the array with a screening agent, wherein one or more candidate agents in the array react with the screening agent; (d) detecting the array to determine that at least one candidate agent in the array reacts with the screening agent; (e) sequencing the nucleic acid tag to determine the tag sequences attached to candidate agents in the array; and (f) identifying the at least one candidate agent in the array that reacts with the screening agent based on the tag sequence that is attached to the at least one candidate agent.
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公开(公告)号：US20220316003A1
公开(公告)日：2022-10-06
申请号：US17618836
申请日：2021-03-09
Applicant: Illumina, Inc.
Inventor： Jared Peace , Klara Bojanovic Machado , Peter McInerney , Jonathan Mark Boutell
IPC: C12Q1/6874
Abstract: The present invention relates to improvements in methods of high throughput nucleic acid sequencing, and in particular to improvements to methods of carrying out extension reactions during pairwise sequencing. The present invention relates to a method for carrying out a strand resynthesis extension reaction during pairwise sequencing, wherein said strand resynthesis extension reaction is carried out between a first sequencing read and a second sequencing read, and wherein said strand resynthesis extension reaction extends one or more immobilised primers to copy a first template strand to generate a second immobilised template strand; characterised in that the strand resynthesis extension reaction is carried out using a non-thermostable strand displacement polymerase at a temperature of less than 55° C., preferably at 38° C.
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25.发明申请公开(公告)号：US20210230689A1
公开(公告)日：2021-07-29
申请号：US17227639
申请日：2021-04-12
Applicant: Illumina, Inc. , Illumina Cambridge Limited
Inventor： Eric Vermaas , Mahdieh Khosroheidari , Angela Kalbande , Vincent Peter Smith , Claire Bevis-Mott , Jonathan Mark Boutell , Michael Chesney
IPC: C12Q1/6874 , C12Q1/6809 , C12Q1/6816 , C12Q1/6834 , C12Q1/6855 , C12Q1/6806
Abstract: The present invention is concerned with compositions and methods for improving the rate of correct sample identification in indexed nucleic acid library preparations for multiplex next generation sequencing by blocking the 3′ ends of pooled indexed polynucleotides from multiple samples prior to amplification and sequencing, by exonuclease treatment and optionally blocking the 3′ ends of pooled indexed polynucleotides from multiple samples prior to amplification and sequencing, by exonuclease treatment after protective adapters are ligated to target polynucleotides to degrade unincorporated adapters prior to amplification and sequencing, and/or by modifying or blocking 5′ and 3′ ends of pooled indexed polynucleotides from multiple samples, with an optional exonuclease treatment, prior to amplification and sequencing.
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Patent Agency Ranking
公开(公告)号：US10901230B2
公开(公告)日：2021-01-26
申请号：US16311652
申请日：2017-06-20
Applicant: ILLUMINA, INC. , ILLUMINA CAMBRIDGE LIMITED
Inventor： Gary Mark Skinner , Geraint Wyn Evans , Stanley S. Hong , John A. Moon , M. Shane Bowen , Jonathan Mark Boutell , Jason Richard Betley
Abstract: Example super-resolution microscopy systems are described herein that are configured for relatively high throughput. The disclosed microscopy systems can be to generate an array of sub-diffraction activated areas for imaging. The microscopy systems can be to utilize imaging techniques that employ time delay integration to build up super-resolution images over time. The disclosed microscopy systems can utilize long-lived fluorophores in conjunction with wide field and patterned illumination to generate super-resolution images of a sample with relatively high throughput.
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公开(公告)号：US10900077B2
公开(公告)日：2021-01-26
申请号：US16405679
申请日：2019-05-07
Applicant: Illumina, Inc.
Inventor： Robert C. Kain , Xiaohai Liu , Wenyi Feng , Bernard Hirschbein , Helmy A. Eltoukhy , Xiaolin Wu , Geoffrey Paul Smith , Jonathan Mark Boutell , Thomas Joseph , Randall Smith , Min-Jui Richard Shen , Carolyn Tregidgo , Kay Klausing
IPC: C12Q1/68 , C12Q1/6874 , C12Q1/6869
Abstract: The present disclosure provides methods and systems for detecting multiple different nucleotides in a sample. In particular, the disclosure provides for detection of multiple different nucleotides in a sample utilizing fewer detection moieties than the number of nucleotides being detected and/or fewer imaging events than the number of nucleotides being detected.
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公开(公告)号：US09453258B2
公开(公告)日：2016-09-27
申请号：US13624200
申请日：2012-09-21
Applicant: Illumina, Inc.
Inventor： Robert C. Kain , Xiaohai Liu , Wenyi Feng , Bernard Hirschbein , Helmy A. Eltoukhy , Xiaolin Wu , Geoffrey Paul Smith , Jonathan Mark Boutell , Thomas Joseph , Randall Smith , Min-Jui Richard Shen , Carolyn Tregidgo , Kay Klausing
IPC: C12Q1/68
CPC classification number: C12Q1/6874 , C12Q1/6869 , C12Q2525/113 , C12Q2535/122 , C12Q2563/107
Abstract: The present disclosure provides methods and systems for detecting multiple different nucleotides in a sample. In particular, the disclosure provides for detection of multiple different nucleotides in a sample utilizing fewer detection moieties than the number of nucleotides being detected and/or fewer imaging events than the number of nucleotides being detected.
Abstract translation: 本公开提供了用于检测样品中多个不同核苷酸的方法和系统。 具体地，本公开提供了使用比检测到的核苷酸数目少于检测到的核苷酸数目和/或比检测到的核苷酸数目更少的成像事件来检测样品中的多个不同核苷酸。
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公开(公告)号：US20150080230A1
公开(公告)日：2015-03-19
申请号：US14512693
申请日：2014-10-13
Applicant: ILLUMINA, INC.
Inventor： Min-Jui Richard Shen , Jonathan Mark Boutell , Kathryn M. Stephens , Mostafa Ronaghi , Kevin Gunderson , Bala Murali Venkatesan , M. Shane Bowen , Kandaswamy Vijayan
CPC classification number: C12Q1/6848 , B01J19/0046 , B01J2219/00585 , B01J2219/00587 , B01J2219/00608 , B01J2219/00621 , B01J2219/00637 , B01J2219/00653 , B01J2219/00675 , B01J2219/00722 , C12Q1/6844 , C12Q1/6874 , C12Q2521/507 , C12Q2527/101 , C12Q2527/113 , C12Q2535/122 , C12Q2565/513 , C12Q2565/537
Abstract: A method including (a) providing an amplification reagent including an array of sites, and a solution having different target nucleic acids; and (b) reacting the amplification reagent to produce amplification sites each having a clonal population of amplicons from a target nucleic acid from the solution. The reacting can include simultaneously transporting the nucleic acids to the sites at an average transport rate, and amplifying the nucleic acids that transport to the sites at an average amplification rate, wherein the average amplification rate exceeds the average transport rate. The reacting can include producing a first amplicon from a nucleic acid that transports to each of the sites, and producing subsequent amplicons from the nucleic acid or from the first amplicon, wherein the average rate at which the subsequent amplicons are generated exceeds the average rate at which the first amplicon is generated.
Abstract translation: 一种方法，包括（a）提供包含位点阵列的扩增试剂和具有不同靶核酸的溶液; 和（b）使扩增试剂反应以产生每个具有来自溶液的靶核酸的扩增子的克隆群的扩增位点。 反应可以包括以平均传输速率同时将核酸输送到位点，以及以平均扩增速率扩增转运到位点的核酸，其中平均扩增速率超过平均传输速率。 该反应可以包括从转运到每个位点的核酸产生第一扩增子，并产生来自核酸或第一扩增子的后续扩增子，其中后续扩增子产生的平均速率超过在 其中生成第一个扩增子。
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30.发明公开公开(公告)号：US20240301464A1
公开(公告)日：2024-09-12
申请号：US18414085
申请日：2024-01-16
Applicant: Illumina, Inc.
Inventor： Aathavan Karunakaran , Shagesh Sridharan , Jonathan Mark Boutell , Gery M. Vessere
IPC: C12Q1/6806 , C12Q1/6869
CPC classification number: C12Q1/6806 , C12Q1/6869
Abstract: The invention relates to methods of detecting modified cytosines in nucleic acid sequences.
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