RU2721965C2 - Обнаружение изменений конформации полимеразы нуклеиновых кислот с помощью нанотрубки - Google Patents

Обнаружение изменений конформации полимеразы нуклеиновых кислот с помощью нанотрубки Download PDF

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RU2721965C2
RU2721965C2 RU2017125417A RU2017125417A RU2721965C2 RU 2721965 C2 RU2721965 C2 RU 2721965C2 RU 2017125417 A RU2017125417 A RU 2017125417A RU 2017125417 A RU2017125417 A RU 2017125417A RU 2721965 C2 RU2721965 C2 RU 2721965C2
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nucleic acid
nucleotide
molecule
dntp
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Филип Г. КОЛЛИНЗ
Грегори А. ВАЙСС
Йонгки ЧОЙ
Тиволи ОЛСЕН
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Дзе Риджентс Оф Дзе Юниверсити Оф Калифорния
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    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12Q—MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
    • C12Q1/00—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions
    • C12Q1/48—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving transferase
    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12Q—MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
    • C12Q1/00—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions
    • C12Q1/48—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving transferase
    • C12Q1/485—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving transferase involving kinase
    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12Q—MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
    • C12Q1/00—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions
    • C12Q1/68—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving nucleic acids
    • C12Q1/6869—Methods for sequencing
    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12Y—ENZYMES
    • C12Y207/00—Transferases transferring phosphorus-containing groups (2.7)
    • C12Y207/07—Nucleotidyltransferases (2.7.7)
    • C12Y207/07007—DNA-directed DNA polymerase (2.7.7.7), i.e. DNA replicase
    • G—PHYSICS
    • G01—MEASURING; TESTING
    • G01N—INVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
    • G01N27/00—Investigating or analysing materials by the use of electric, electrochemical, or magnetic means
    • G01N27/26—Investigating or analysing materials by the use of electric, electrochemical, or magnetic means by investigating electrochemical variables; by using electrolysis or electrophoresis
    • G01N27/403—Cells and electrode assemblies
    • G01N27/414—Ion-sensitive or chemical field-effect transistors, i.e. ISFETS or CHEMFETS
    • G01N27/4146—Ion-sensitive or chemical field-effect transistors, i.e. ISFETS or CHEMFETS involving nanosized elements, e.g. nanotubes, nanowires
    • G—PHYSICS
    • G01—MEASURING; TESTING
    • G01N—INVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
    • G01N33/00—Investigating or analysing materials by specific methods not covered by groups G01N1/00 - G01N31/00
    • G01N33/48—Biological material, e.g. blood, urine; Haemocytometers
    • G01N33/483—Physical analysis of biological material
    • G01N33/487—Physical analysis of biological material of liquid biological material
    • G01N33/48707—Physical analysis of biological material of liquid biological material by electrical means
    • G01N33/48721—Investigating individual macromolecules, e.g. by translocation through nanopores
    • G—PHYSICS
    • G01—MEASURING; TESTING
    • G01N—INVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
    • G01N2333/00—Assays involving biological materials from specific organisms or of a specific nature
    • G01N2333/90—Enzymes; Proenzymes
    • G01N2333/91—Transferases (2.)
    • G01N2333/912—Transferases (2.) transferring phosphorus containing groups, e.g. kinases (2.7)
    • G01N2333/91205—Phosphotransferases in general
    • G01N2333/91245—Nucleotidyltransferases (2.7.7)
    • G01N2333/9125—Nucleotidyltransferases (2.7.7) with a definite EC number (2.7.7.-)
    • G01N2333/9126—DNA-directed DNA polymerase (2.7.7.7)

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  • Urology & Nephrology (AREA)
  • Food Science & Technology (AREA)
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  • Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)
  • Apparatus Associated With Microorganisms And Enzymes (AREA)
RU2017125417A 2014-12-18 2015-12-17 Обнаружение изменений конформации полимеразы нуклеиновых кислот с помощью нанотрубки RU2721965C2 (ru)

Applications Claiming Priority (3)

Application Number Priority Date Filing Date Title
US201462093671P 2014-12-18 2014-12-18
US62/093,671 2014-12-18
PCT/US2015/066321 WO2016100635A1 (en) 2014-12-18 2015-12-17 Detection of nucleic acid polymerase conformational changes using a nanotube

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RU2017125417A RU2017125417A (ru) 2019-01-23
RU2017125417A3 RU2017125417A3 (enExample) 2019-05-27
RU2721965C2 true RU2721965C2 (ru) 2020-05-25

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US (1) US20180051316A1 (enExample)
EP (1) EP3234178A4 (enExample)
JP (1) JP2018500905A (enExample)
KR (1) KR20170091158A (enExample)
CN (2) CN109517878A (enExample)
AU (1) AU2015364602B2 (enExample)
CA (1) CA2971268A1 (enExample)
RU (1) RU2721965C2 (enExample)
SG (1) SG11201704862UA (enExample)
WO (2) WO2016100637A1 (enExample)

Families Citing this family (50)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
KR102763291B1 (ko) 2016-01-28 2025-02-04 로스웰 엠이 아이엔씨. 대량 병렬 ｄｎａ 시퀀싱 장치
US11624725B2 (en) 2016-01-28 2023-04-11 Roswell Blotechnologies, Inc. Methods and apparatus for measuring analytes using polymerase in large scale molecular electronics sensor arrays
CA3053103A1 (en) 2016-02-09 2017-08-17 Roswell Biotechnologies, Inc. Electronic label-free dna and genome sequencing
US10597767B2 (en) 2016-02-22 2020-03-24 Roswell Biotechnologies, Inc. Nanoparticle fabrication
US9829456B1 (en) 2016-07-26 2017-11-28 Roswell Biotechnologies, Inc. Method of making a multi-electrode structure usable in molecular sensing devices
CN106244712B (zh) 2016-08-31 2019-11-19 北京大学 Dna测序方法
WO2018098286A1 (en) * 2016-11-22 2018-05-31 Roswell Biotechnologies, Inc. Nucleic acid sequencing device containing graphene
CA3052062A1 (en) 2017-01-10 2018-07-19 Roswell Biotechnologies, Inc. Methods and systems for dna data storage
KR102601324B1 (ko) 2017-01-19 2023-11-10 로스웰 바이오테크놀로지스 인코포레이티드 2차원 레이어 재료를 포함하는 솔리드 스테이트 시퀀싱 디바이스들
US10508296B2 (en) 2017-04-25 2019-12-17 Roswell Biotechnologies, Inc. Enzymatic circuits for molecular sensors
CA3057151A1 (en) * 2017-04-25 2018-11-01 Roswell Biotechnologies, Inc. Enzymatic circuits for molecular sensors
EP3622086A4 (en) 2017-05-09 2021-04-21 Roswell Biotechnologies, Inc LINK PROBE CIRCUITS FOR MOLECULAR SENSORS
CN111373049A (zh) 2017-08-30 2020-07-03 罗斯威尔生命技术公司 用于dna数据存储的进行性酶分子电子传感器
KR102620326B1 (ko) * 2017-09-15 2024-01-02 일루미나, 인코포레이티드 서열-검출 시스템
KR102322055B1 (ko) 2017-09-15 2021-11-04 일루미나, 인코포레이티드 서열-검출 시스템의 조율 및 교정 특징
US11100404B2 (en) 2017-10-10 2021-08-24 Roswell Biotechnologies, Inc. Methods, apparatus and systems for amplification-free DNA data storage
IL273875B2 (en) * 2017-10-13 2025-07-01 Dicerna Pharmaceuticals Inc Methods and compositions for inhibiting expression of ldha
EP3793721A4 (en) * 2018-05-17 2022-07-20 Recognition Analytix, Inc. DEVICE, SYSTEM AND METHOD FOR DIRECT ELECTRICAL MEASUREMENT OF ENZYME ACTIVITY
US20240011086A1 (en) 2018-11-15 2024-01-11 Omniome, Inc. Electronic detection of nucleic acid structure
CN113166805B (zh) 2018-12-04 2024-07-16 加利福尼亚太平洋生物科学股份有限公司 用于核酸测序和其他分析测定的混合相流体
WO2020160300A2 (en) 2019-01-30 2020-08-06 Stuart Lindsay Bioelectronic circuits, systems and methods for preparing and using them
US11499189B2 (en) 2019-02-14 2022-11-15 Pacific Biosciences Of California, Inc. Mitigating adverse impacts of detection systems on nucleic acids and other biological analytes
US20220145377A1 (en) * 2019-03-01 2022-05-12 Universal Sequencing Technology Corporation Device and Method for Biopolymer Identification
KR20220012920A (ko) * 2019-05-27 2022-02-04 유니버셜 시퀀싱 테크놀로지 코퍼레이션 핵산 서열 내의 구성요소를 확인하는 방법
EP4265628B1 (en) 2019-09-10 2025-11-05 Pacific Biosciences of California, Inc. Reversible modification of nucleotides
DE202019106694U1 (de) 2019-12-02 2020-03-19 Omniome, Inc. System zur Sequenzierung von Nukleinsäuren in Fluidschaum
WO2021158511A1 (en) 2020-02-04 2021-08-12 Omniome, Inc. Flow cells and methods for their manufacture and use
KR20220147602A (ko) * 2020-02-28 2022-11-03 아리조나 보드 오브 리젠츠 온 비하프 오브 아리조나 스테이트 유니버시티 생체고분자를 시퀀싱하는 방법
US12298300B2 (en) 2020-04-17 2025-05-13 Arizona Board Of Regents On Behalf Of Arizona State University Single-molecule electronic sequence detector and methods of use
EP4158063A4 (en) 2020-05-29 2024-05-29 Arizona Board of Regents on behalf of Arizona State University BIOELECTRONIC DEVICES WITH PROGRAMMABLE ADAPTERS
WO2021252800A1 (en) 2020-06-11 2021-12-16 Nautilus Biotechnology, Inc. Methods and systems for computational decoding of biological, chemical, and physical entities
KR20230118570A (ko) 2020-11-11 2023-08-11 노틸러스 서브시디어리, 인크. 강화된 결합 및 검출 특성을 갖는 친화성 시약
CA3203535A1 (en) 2021-01-21 2022-07-28 Gregory KAPP Systems and methods for biomolecule preparation
IL305336B2 (en) 2021-03-11 2025-09-01 Nautilus Subsidiary Inc Systems and methods for preserving biomolecules
WO2023038859A1 (en) 2021-09-09 2023-03-16 Nautilus Biotechnology, Inc. Characterization and localization of protein modifications
AU2022352593A1 (en) 2021-09-22 2024-02-15 Nautilus Subsidiary, Inc. Methods and systems for determining polypeptide interactions
US20230149883A1 (en) 2021-11-03 2023-05-18 Nautilus Biotechnology, Inc. Systems and methods for surface structuring
CA3245990A1 (en) 2022-03-29 2023-10-05 Nautilus Subsidiary Inc INTEGRATED NETWORKS FOR SINGLE-ANALYTE PROCESSES
CN117174183B (zh) * 2022-05-27 2025-11-25 中国科学院大连化学物理研究所 基于多尺度分子动力学模拟的rna结构预测方法
US20250376716A1 (en) 2022-06-21 2025-12-11 Nautilus Subsidiary, Inc. Method for detecting analytes at sites of optically non-resolvable distances
WO2024073599A1 (en) 2022-09-29 2024-04-04 Nautilus Subsidiary, Inc. Preparation of array surfaces for single-analyte processes
WO2024124073A1 (en) 2022-12-09 2024-06-13 Nautilus Subsidiary, Inc. A method comprising performing on a single-analyte array at least 50 cycles of a process
WO2024130000A1 (en) 2022-12-15 2024-06-20 Nautilus Subsidiary, Inc. Inhibition of photon phenomena on single molecule arrays
WO2024206122A1 (en) 2023-03-24 2024-10-03 Nautilus Subsidiary, Inc. Improved transfer of nanoparticles to array surfaces
US20240394902A1 (en) 2023-05-24 2024-11-28 Nautilus Subsidiary, Inc. Systems and methods for machine vision
US20250066841A1 (en) 2023-08-24 2025-02-27 Nautilus Subsidiary, Inc. Compositions and methods for detecting binding interactions under equilibrium or non-equilibrium conditions
WO2025128588A1 (en) 2023-12-11 2025-06-19 Nautilus Subsidiary, Inc. Methods and compositions of particle-based arrays
US20250205706A1 (en) 2023-12-20 2025-06-26 Nautilus Subsidiary, Inc. Fluidic devices for single-analyte assays
WO2025199236A1 (en) 2024-03-22 2025-09-25 Nautilus Subsidiary, Inc. Plasmonic particle systems for single-analyte assays
WO2025212338A1 (en) 2024-04-01 2025-10-09 Nautilus Subsidiary, Inc. Nanostructures for modulation of analyte conformation

Citations (4)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US20110160077A1 (en) * 2009-12-16 2011-06-30 Pacific Biosciences Of California, Inc. Sequencing methods using enzyme conformation
US20110287432A1 (en) * 2010-05-21 2011-11-24 454 Life Science Corporation System and method for tailoring nucleotide concentration to enzymatic efficiencies in dna sequencing technologies
US20130078622A1 (en) * 2011-09-26 2013-03-28 The Regents Of The University Of California Electronic device for monitoring single molecule dynamics
US20130165328A1 (en) * 2011-12-21 2013-06-27 Illumina, Inc. Apparatus and methods for kinetic analysis and determination of nucleic acid sequences

Family Cites Families (3)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
JP5554449B2 (ja) * 2010-06-03 2014-07-23 エレメント シックス リミテッド ダイヤモンド工具
EP3444600B1 (en) * 2011-01-11 2020-05-13 The Trustees of Columbia University in the City of New York System and methods for single-molecule detection using nanotubes
WO2014031575A1 (en) * 2012-08-20 2014-02-27 The Regents Of The University Of California Polynucleotides having bioreversible groups

Patent Citations (4)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US20110160077A1 (en) * 2009-12-16 2011-06-30 Pacific Biosciences Of California, Inc. Sequencing methods using enzyme conformation
US20110287432A1 (en) * 2010-05-21 2011-11-24 454 Life Science Corporation System and method for tailoring nucleotide concentration to enzymatic efficiencies in dna sequencing technologies
US20130078622A1 (en) * 2011-09-26 2013-03-28 The Regents Of The University Of California Electronic device for monitoring single molecule dynamics
US20130165328A1 (en) * 2011-12-21 2013-06-27 Illumina, Inc. Apparatus and methods for kinetic analysis and determination of nucleic acid sequences

Non-Patent Citations (1)

* Cited by examiner, † Cited by third party
Title
СУХОДОЛОВ Н.Г. и др., Новые материалы, полученные методом Ленгмюра-Блоджетт, и их применение в нанотехнологии и приборостроении (ч.1 гибридные материалы) // Научное приборостроение, т.23, n.1., 2013, стр.86-105. *

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AU2015364602B2 (en) 2021-12-09
RU2017125417A (ru) 2019-01-23
KR20170091158A (ko) 2017-08-08
SG11201704862UA (en) 2017-07-28
CN109517878A (zh) 2019-03-26
WO2016100635A1 (en) 2016-06-23
JP2018500905A (ja) 2018-01-18
US20180051316A1 (en) 2018-02-22
CN107109466A (zh) 2017-08-29
WO2016100637A1 (en) 2016-06-23
AU2015364602A1 (en) 2017-07-06
EP3234178A1 (en) 2017-10-25
CA2971268A1 (en) 2016-06-23
RU2017125417A3 (enExample) 2019-05-27
EP3234178A4 (en) 2018-07-11

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