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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    • CCHEMISTRY; METALLURGY
    • C12BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12QMEASURING 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
    • C12Q1/00Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions
    • C12Q1/48Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving transferase
    • CCHEMISTRY; METALLURGY
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    • C12Q1/00Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions
    • C12Q1/48Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving transferase
    • C12Q1/485Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving transferase involving kinase
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    • C12Q1/00Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions
    • C12Q1/68Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving nucleic acids
    • C12Q1/6869Methods for sequencing
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    • C12BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12YENZYMES
    • C12Y207/00Transferases transferring phosphorus-containing groups (2.7)
    • C12Y207/07Nucleotidyltransferases (2.7.7)
    • C12Y207/07007DNA-directed DNA polymerase (2.7.7.7), i.e. DNA replicase
    • GPHYSICS
    • G01MEASURING; TESTING
    • G01NINVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
    • G01N27/00Investigating or analysing materials by the use of electric, electrochemical, or magnetic means
    • G01N27/26Investigating or analysing materials by the use of electric, electrochemical, or magnetic means by investigating electrochemical variables; by using electrolysis or electrophoresis
    • G01N27/403Cells and electrode assemblies
    • G01N27/414Ion-sensitive or chemical field-effect transistors, i.e. ISFETS or CHEMFETS
    • G01N27/4146Ion-sensitive or chemical field-effect transistors, i.e. ISFETS or CHEMFETS involving nanosized elements, e.g. nanotubes, nanowires
    • GPHYSICS
    • G01MEASURING; TESTING
    • G01NINVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
    • G01N33/00Investigating or analysing materials by specific methods not covered by groups G01N1/00 - G01N31/00
    • G01N33/48Biological material, e.g. blood, urine; Haemocytometers
    • G01N33/483Physical analysis of biological material
    • G01N33/487Physical analysis of biological material of liquid biological material
    • G01N33/48707Physical analysis of biological material of liquid biological material by electrical means
    • G01N33/48721Investigating individual macromolecules, e.g. by translocation through nanopores
    • GPHYSICS
    • G01MEASURING; TESTING
    • G01NINVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
    • G01N2333/00Assays involving biological materials from specific organisms or of a specific nature
    • G01N2333/90Enzymes; Proenzymes
    • G01N2333/91Transferases (2.)
    • G01N2333/912Transferases (2.) transferring phosphorus containing groups, e.g. kinases (2.7)
    • G01N2333/91205Phosphotransferases in general
    • G01N2333/91245Nucleotidyltransferases (2.7.7)
    • G01N2333/9125Nucleotidyltransferases (2.7.7) with a definite EC number (2.7.7.-)
    • G01N2333/9126DNA-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 (https=) 2019-05-27
RU2721965C2 true RU2721965C2 (ru) 2020-05-25

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US (1) US20180051316A1 (https=)
EP (1) EP3234178A4 (https=)
JP (1) JP2018500905A (https=)
KR (1) KR20170091158A (https=)
CN (2) CN107109466A (https=)
AU (1) AU2015364602B2 (https=)
CA (1) CA2971268A1 (https=)
RU (1) RU2721965C2 (https=)
SG (1) SG11201704862UA (https=)
WO (2) WO2016100637A1 (https=)

Families Citing this family (52)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
CN113985017A (zh) 2016-01-14 2022-01-28 罗斯韦尔生物技术股份有限公司 分子传感器及相关方法
CN109071212A (zh) 2016-01-28 2018-12-21 罗斯韦尔生物技术股份有限公司 使用大规模分子电子传感器阵列测量分析物的方法和装置
KR102763291B1 (ko) 2016-01-28 2025-02-04 로스웰 엠이 아이엔씨. 대량 병렬 dna 시퀀싱 장치
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
EP3545076A4 (en) * 2016-11-22 2020-07-29 Roswell Biotechnologies, Inc NUCLEIC ACID SEQUENCING DEVICE CONTAINING GRAPHEN
CN110431148A (zh) 2017-01-10 2019-11-08 罗斯威尔生命技术公司 用于dna数据存储的方法和系统
CA3052140A1 (en) * 2017-01-19 2018-07-26 Roswell Biotechnologies, Inc. Solid state sequencing devices comprising two dimensional layer materials
US10508296B2 (en) 2017-04-25 2019-12-17 Roswell Biotechnologies, Inc. Enzymatic circuits for molecular sensors
EP3615685B1 (en) 2017-04-25 2025-02-19 Roswell Biotechnologies, Inc Enzymatic circuits for molecular sensors
EP3622086A4 (en) 2017-05-09 2021-04-21 Roswell Biotechnologies, Inc BINDING 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
JP2020530257A (ja) 2017-09-15 2020-10-22 イルミナ インコーポレイテッド 配列検出システム
CA3067230A1 (en) 2017-09-15 2019-03-21 Illumina, Inc. Tuning and calibration features of a sequence-detection system
EP3694990A4 (en) 2017-10-10 2022-06-15 Roswell Biotechnologies, Inc. METHODS, DEVICE AND SYSTEMS FOR AMPLIFICATION-FREE DNA DATA STORAGE
HRP20231063T1 (hr) * 2017-10-13 2023-12-22 Novo Nordisk Health Care Ag Postupci i pripravci namijenjeni inhibiranju eksprimiranja ldha
SG11202011394WA (en) * 2018-05-17 2020-12-30 Stuart Lindsay 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
CN211311477U (zh) 2018-12-04 2020-08-21 欧姆尼欧美公司 测序系统
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
CN114641578A (zh) * 2019-03-01 2022-06-17 通用测序技术公司 用于生物聚合物鉴定的装置和方法
US20220251638A1 (en) * 2019-05-27 2022-08-11 Universal Sequencing Technology Corporation Methods to Identify Components in Nucleic Acid Sequences
EP4028407B1 (en) 2019-09-10 2023-08-16 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
WO2021211950A1 (en) 2020-04-17 2021-10-21 Arizona Board Of Regents On Behalf Of Arizona State University Single-molecule electronic sequence detector and methods of use
KR20230005866A (ko) 2020-04-30 2023-01-10 아리조나 보드 오브 리젠츠 온 비하프 오브 아리조나 스테이트 유니버시티 바이오폴리머 시퀀싱 방법
EP4158063A4 (en) 2020-05-29 2024-05-29 Arizona Board of Regents on behalf of Arizona State University BIOELECTRONIC DEVICES WITH PROGRAMMABLE ADAPTERS
AU2021288692A1 (en) 2020-06-11 2023-02-02 Nautilus Subsidiary, Inc. Methods and systems for computational decoding of biological, chemical, and physical entities
CA3196729A1 (en) 2020-11-11 2022-05-19 Tural AKSEL Affinity reagents having enhanced binding and detection characteristics
EP4281775B1 (en) 2021-01-21 2026-04-29 Nautilus Subsidiary, Inc. Systems and methods for biomolecule preparation
IL305336B2 (en) 2021-03-11 2025-09-01 Nautilus Subsidiary Inc Systems and methods for preserving biomolecules
CA3227872A1 (en) 2021-09-09 2023-03-16 James Henry JOLY Characterization and localization of protein modifications
CA3227592A1 (en) 2021-09-22 2023-03-30 Gregory KAPP Methods and systems for determining polypeptide interactions
US20230149883A1 (en) 2021-11-03 2023-05-18 Nautilus Biotechnology, Inc. Systems and methods for surface structuring
US12092578B2 (en) 2022-03-29 2024-09-17 Nautilus Subsidiary, Inc. Integrated arrays 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
EP4544077A1 (en) 2022-06-21 2025-04-30 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
US20240201182A1 (en) 2022-12-15 2024-06-20 Nautilus Subsidiary, Inc. Inhibition of photon phenomena on single molecule arrays
EP4689173A1 (en) 2023-03-24 2026-02-11 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
US20250189519A1 (en) 2023-12-11 2025-06-12 Nautilus Subsidiary, Inc. Methods and compositions of particle-based arrays
WO2025137166A1 (en) 2023-12-20 2025-06-26 Nautilus Subsidiary, Inc. Fluidic devices for single-analyte assays
US20250298016A1 (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
US8884251B2 (en) * 2010-06-03 2014-11-11 Element Six Limited Diamond tools
CN103620403B (zh) * 2011-01-11 2016-08-10 纽约市哥伦比亚大学理事会 使用纳米管监测单分子的系统和方法
US9950001B2 (en) * 2012-08-20 2018-04-24 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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JP2018500905A (ja) 2018-01-18
EP3234178A4 (en) 2018-07-11
AU2015364602A1 (en) 2017-07-06
EP3234178A1 (en) 2017-10-25
CN109517878A (zh) 2019-03-26
SG11201704862UA (en) 2017-07-28
CA2971268A1 (en) 2016-06-23
AU2015364602B2 (en) 2021-12-09
KR20170091158A (ko) 2017-08-08
RU2017125417A3 (https=) 2019-05-27
RU2017125417A (ru) 2019-01-23
CN107109466A (zh) 2017-08-29
WO2016100637A1 (en) 2016-06-23
WO2016100635A1 (en) 2016-06-23
US20180051316A1 (en) 2018-02-22

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