公开(公告)号：US10233493B2

公开(公告)日：2019-03-19

申请号：US15853118

申请日：2017-12-22

Applicant: Illumina, Inc.

Inventor： Molly He ,  Cheng-Yao Chen ,  Eric Kool ,  Mostafa Ronaghi ,  Michael Previte ,  Rigo Pantoja

IPC: C12P19/34 ,  C12Q1/6874 ,  C12Q1/6806 ,  C12Q1/6818

Abstract: This disclosure provides a method of determining a sequence of nucleotides for a nucleic acid template. The method can include the steps of contacting the nucleic acid template with a conformationally labeled polymerase and at least four different nucleotide species under conditions wherein the conformationally labeled polymerase catalyzes sequential addition of the nucleotide species to form a nucleic acid complement of the nucleic acid template, wherein the sequential addition of each different nucleotide species produces a conformational signal change from the conformationally labeled polymerase and wherein the rate or time duration for the conformational signal change is distinguishable for each different nucleotide species; detecting a series of changes in the signal from the conformationally labeled polymerase under the conditions; and determining the rates or time durations for the changes in the signal, thereby determining the sequence of nucleotides for the nucleic acid template.

公开(公告)号：US20230235395A1

公开(公告)日：2023-07-27

申请号：US18129747

申请日：2023-03-31

Applicant: Illumina, Inc.

Inventor： Molly He ,  Cheng-Yao Chen ,  Eric Kool ,  Mostafa Ronaghi ,  Michael Previte ,  Rigo Pantoja

IPC: C12Q1/6874 ,  C12Q1/6806 ,  C12Q1/6818

CPC classification number: C12Q1/6874 ,  C12Q1/6806 ,  C12Q1/6818

Abstract: This disclosure provides a method of determining a sequence of nucleotides for a nucleic acid template. The method can include the steps of contacting the nucleic acid template with a conformationally labeled polymerase and at least four different nucleotide species under conditions wherein the conformationally labeled polymerase catalyzes sequential addition of the nucleotide species to form a nucleic acid complement of the nucleic acid template, wherein the sequential addition of each different nucleotide species produces a conformational signal change from the conformationally labeled polymerase and wherein the rate or time duration for the conformational signal change is distinguishable for each different nucleotide species; detecting a series of changes in the signal from the conformationally labeled polymerase under the conditions; and determining the rates or time durations for the changes in the signal, thereby determining the sequence of nucleotides for the nucleic acid template.

公开(公告)号：US11643684B2

公开(公告)日：2023-05-09

申请号：US17091845

申请日：2020-11-06

Applicant: Illumina, Inc.

Inventor： Molly He ,  Cheng-Yao Chen ,  Eric Kool ,  Mostafa Ronaghi ,  Michael Previte ,  Rigo Pantoja

IPC: C12P19/34 ,  C12Q1/6874 ,  C12Q1/6806 ,  C12Q1/6818

CPC classification number: C12Q1/6874 ,  C12Q1/6806 ,  C12Q1/6818 ,  C12Q1/6874 ,  C12Q2565/133 ,  C12Q2563/125 ,  C12Q2525/101 ,  C12Q1/6874 ,  C12Q2565/133 ,  C12Q2563/125 ,  C12Q2565/1015

Abstract: This disclosure provides a method of determining a sequence of nucleotides for a nucleic acid template. The method can include the steps of contacting the nucleic acid template with a conformationally labeled polymerase and at least four different nucleotide species under conditions wherein the conformationally labeled polymerase catalyzes sequential addition of the nucleotide species to form a nucleic acid complement of the nucleic acid template, wherein the sequential addition of each different nucleotide species produces a conformational signal change from the conformationally labeled polymerase and wherein the rate or time duration for the conformational signal change is distinguishable for each different nucleotide species; detecting a series of changes in the signal from the conformationally labeled polymerase under the conditions; and determining the rates or time durations for the changes in the signal, thereby determining the sequence of nucleotides for the nucleic acid template.

公开(公告)号：US20210164040A1

公开(公告)日：2021-06-03

申请号：US17091845

申请日：2020-11-06

Applicant: Illumina, Inc.

Inventor： Molly He ,  Cheng-Yao Chen ,  Eric Kool ,  Mostafa Ronaghi ,  Michael Previte ,  Rigo Pantoja

IPC: C12Q1/6874 ,  C12Q1/6806 ,  C12Q1/6818

Abstract: This disclosure provides a method of determining a sequence of nucleotides for a nucleic acid template. The method can include the steps of contacting the nucleic acid template with a conformationally labeled polymerase and at least four different nucleotide species under conditions wherein the conformationally labeled polymerase catalyzes sequential addition of the nucleotide species to form a nucleic acid complement of the nucleic acid template, wherein the sequential addition of each different nucleotide species produces a conformational signal change from the conformationally labeled polymerase and wherein the rate or time duration for the conformational signal change is distinguishable for each different nucleotide species; detecting a series of changes in the signal from the conformationally labeled polymerase under the conditions; and determining the rates or time durations for the changes in the signal, thereby determining the sequence of nucleotides for the nucleic acid template.

公开(公告)号：US20210130885A1

公开(公告)日：2021-05-06

申请号：US17145846

申请日：2021-01-11

Applicant: ILLUMINA, INC.

Inventor： Alex So ,  Li Liu ,  Min-Jui Richard Shen ,  Neeraj Salathia ,  Kathryn M. Stephens ,  Anne Jager ,  Timothy Wilson ,  Justin Fullerton ,  Sean M. Ramirez ,  Shannon Kaplan ,  Rigo Pantoja ,  Bala Murali Venkatesan ,  Steven Modiano

IPC: C12Q1/6837 ,  C12Q1/6874 ,  C12Q1/6816 ,  C12Q1/6855

Abstract: Presented are methods and compositions for spatial detection and analysis of nucleic acids in a tissue sample. The methods can enable the characterization of transcriptomes and/or genomic variations in tissues while preserving spatial information about the tissue.

公开(公告)号：US20150159212A1

公开(公告)日：2015-06-11

申请号：US14562307

申请日：2014-12-05

Applicant: Illumina, Inc.

Inventor： Rigo Pantoja ,  Marie Hu ,  Erin Bomati ,  Molly He

IPC: C12Q1/68 ,  C12N15/10

CPC classification number: C12Q1/6874 ,  C12N15/1065 ,  C12N15/1093 ,  C12Q1/6806 ,  C12Q2521/507 ,  C12Q2525/191 ,  C12Q2535/122 ,  C12Q2565/537

Abstract: Embodiments provided herein relate to methods and compositions for obtaining nucleic acid sequence information. Some embodiments provided herein include methods and compositions for preparing nucleic acid libraries. In some embodiments, such nucleic acid libraries are useful for targeted nucleic acid sequencing.

Abstract translation: 本文提供的实施方案涉及用于获得核酸序列信息的方法和组合物。 本文提供的一些实施方案包括用于制备核酸文库的方法和组合物。 在一些实施方案中，这样的核酸文库可用于靶向核酸测序。

公开(公告)号：US11975325B2

公开(公告)日：2024-05-07

申请号：US17358783

申请日：2021-06-25

Applicant: ILLUMINA, INC.

Inventor： Sean M. Ramirez ,  Anmiv Prabhu ,  Rigo Pantoja ,  Michelle Higgins

IPC: C12Q1/6813 ,  B01L3/00 ,  B01L7/00 ,  G01N35/10

CPC classification number: B01L3/502738 ,  B01L7/00 ,  G01N35/1097 ,  B01L2300/0877 ,  B01L2300/1805 ,  C12Q1/6813

Abstract: An example of a kit includes a flow cell assembly. The flow cell assembly includes a reaction chamber, a temperature controlled flow channel in selective fluid communication with an inlet of the reaction chamber, and a filter positioned in the temperature controlled flow channel. The reaction chamber includes depressions separated by interstitial regions and capture primers attached within each of the depressions. The filter is i) to block concentrated biological sample-polymer complexes generated in the temperature controlled flow channel at a first temperature, and ii) to allow passage of concentrated biological sample and polymer released from the complexes in the temperature controlled flow channel at a second temperature.

公开(公告)号：US10309927B2

公开(公告)日：2019-06-04

申请号：US15093529

申请日：2016-04-07

Applicant: Illumina, Inc.

Inventor： Rigo Pantoja ,  Rachel M. Schowalter ,  Jimmy Perrott ,  Cyril Delattre ,  Allen E. Eckhardt

IPC: G01N27/447 ,  C12Q1/6869 ,  B01L3/00 ,  C12Q1/686 ,  C12Q1/6844

Abstract: Some embodiments disclosed herein provide methods of reducing reactive molecular species in a reaction carried out in a digital fluidics device having one or more electrodes by using a reaction mixture comprising an electron acceptor additive. In some embodiments, the presence of the electron acceptor additive reduces the presence of reactive molecular species in the reaction mixture. In some embodiments, the presence of the electron acceptor additive reduces the formation of gas bubbles in the digital fluidic device. Therefore, in preferred embodiments, the electron acceptor additive does not form a gas when reduced.

公开(公告)号：US10100355B2

公开(公告)日：2018-10-16

申请号：US14562307

申请日：2014-12-05

Applicant: Illumina, Inc.

Inventor： Rigo Pantoja ,  Marie Hu ,  Erin Bomati ,  Molly He

IPC: C12Q1/68 ,  C12N15/10 ,  C12Q1/6874 ,  C12Q1/6806

Abstract: Embodiments provided herein relate to methods and compositions for obtaining nucleic acid sequence information. Some embodiments provided herein include methods and compositions for preparing nucleic acid libraries. In some embodiments, such nucleic acid libraries are useful for targeted nucleic acid sequencing.

公开(公告)号：US20180155783A1

公开(公告)日：2018-06-07

申请号：US15853118

申请日：2017-12-22

Applicant: Illumina, Inc.

Inventor： Molly He ,  Cheng-Yao Chen ,  Eric Kool ,  Mostafa Ronaghi ,  Michael Previte ,  Rigo Pantoja

IPC: C12Q1/6874 ,  C12Q1/6806 ,  C12Q1/6818

CPC classification number: C12Q1/6874 ,  C12Q1/6806 ,  C12Q1/6818 ,  C12Q2565/133 ,  C12Q2563/125 ,  C12Q2525/101 ,  C12Q2565/1015

Abstract: This disclosure provides a method of determining a sequence of nucleotides for a nucleic acid template. The method can include the steps of contacting the nucleic acid template with a conformationally labeled polymerase and at least four different nucleotide species under conditions wherein the conformationally labeled polymerase catalyzes sequential addition of the nucleotide species to form a nucleic acid complement of the nucleic acid template, wherein the sequential addition of each different nucleotide species produces a conformational signal change from the conformationally labeled polymerase and wherein the rate or time duration for the conformational signal change is distinguishable for each different nucleotide species; detecting a series of changes in the signal from the conformationally labeled polymerase under the conditions; and determining the rates or time durations for the changes in the signal, thereby determining the sequence of nucleotides for the nucleic acid template.