CA3016037A1 - Procedes, compositions et dispositifs de stockage d'informations - Google Patents

Procedes, compositions et dispositifs de stockage d'informations Download PDF

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Publication number
CA3016037A1
CA3016037A1 CA3016037A CA3016037A CA3016037A1 CA 3016037 A1 CA3016037 A1 CA 3016037A1 CA 3016037 A CA3016037 A CA 3016037A CA 3016037 A CA3016037 A CA 3016037A CA 3016037 A1 CA3016037 A1 CA 3016037A1
Authority
CA
Canada
Prior art keywords
dna
nanopore
polymer
nanochip
sequence
Prior art date
Legal status (The legal status is an assumption and is not a legal conclusion. Google has not performed a legal analysis and makes no representation as to the accuracy of the status listed.)
Pending
Application number
CA3016037A
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English (en)
Inventor
Paul Predki
Maja CASSIDY
Current Assignee (The listed assignees may be inaccurate. Google has not performed a legal analysis and makes no representation or warranty as to the accuracy of the list.)
Iridia Inc
Original Assignee
Iridia Inc
Priority date (The priority date is an assumption and is not a legal conclusion. Google has not performed a legal analysis and makes no representation as to the accuracy of the date listed.)
Filing date
Publication date
Application filed by Iridia Inc filed Critical Iridia Inc
Publication of CA3016037A1 publication Critical patent/CA3016037A1/fr
Pending legal-status Critical Current

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Classifications

    • C—CHEMISTRY; METALLURGY
    • C07—ORGANIC CHEMISTRY
    • C07H—SUGARS; DERIVATIVES THEREOF; NUCLEOSIDES; NUCLEOTIDES; NUCLEIC ACIDS
    • C07H21/00—Compounds containing two or more mononucleotide units having separate phosphate or polyphosphate groups linked by saccharide radicals of nucleoside groups, e.g. nucleic acids
    • C07H21/04—Compounds containing two or more mononucleotide units having separate phosphate or polyphosphate groups linked by saccharide radicals of nucleoside groups, e.g. nucleic acids with deoxyribosyl as saccharide radical
    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12P—FERMENTATION OR ENZYME-USING PROCESSES TO SYNTHESISE A DESIRED CHEMICAL COMPOUND OR COMPOSITION OR TO SEPARATE OPTICAL ISOMERS FROM A RACEMIC MIXTURE
    • C12P19/00—Preparation of compounds containing saccharide radicals
    • C12P19/26—Preparation of nitrogen-containing carbohydrates
    • C12P19/28—N-glycosides
    • C12P19/30—Nucleotides
    • C12P19/34—Polynucleotides, e.g. nucleic acids, oligoribonucleotides
    • 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
    • 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
    • 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
    • G01N27/28—Electrolytic cell components
    • G01N27/30—Electrodes, e.g. test electrodes; Half-cells
    • G01N27/327—Biochemical electrodes, e.g. electrical or mechanical details for in vitro measurements
    • G—PHYSICS
    • G16—INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
    • G16B—BIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
    • G16B20/00—ICT specially adapted for functional genomics or proteomics, e.g. genotype-phenotype associations
    • G—PHYSICS
    • G16—INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
    • G16B—BIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
    • G16B25/00—ICT specially adapted for hybridisation; ICT specially adapted for gene or protein expression
    • G—PHYSICS
    • G16—INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
    • G16B—BIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
    • G16B25/00—ICT specially adapted for hybridisation; ICT specially adapted for gene or protein expression
    • G16B25/20—Polymerase chain reaction [PCR]; Primer or probe design; Probe optimisation
    • B—PERFORMING OPERATIONS; TRANSPORTING
    • B01—PHYSICAL OR CHEMICAL PROCESSES OR APPARATUS IN GENERAL
    • B01J—CHEMICAL OR PHYSICAL PROCESSES, e.g. CATALYSIS OR COLLOID CHEMISTRY; THEIR RELEVANT APPARATUS
    • B01J2219/00—Chemical, physical or physico-chemical processes in general; Their relevant apparatus
    • B01J2219/00274—Sequential or parallel reactions; Apparatus and devices for combinatorial chemistry or for making arrays; Chemical library technology
    • B01J2219/00277—Apparatus
    • B01J2219/00497—Features relating to the solid phase supports
    • B01J2219/00511—Walls of reactor vessels
    • B—PERFORMING OPERATIONS; TRANSPORTING
    • B01—PHYSICAL OR CHEMICAL PROCESSES OR APPARATUS IN GENERAL
    • B01J—CHEMICAL OR PHYSICAL PROCESSES, e.g. CATALYSIS OR COLLOID CHEMISTRY; THEIR RELEVANT APPARATUS
    • B01J2219/00—Chemical, physical or physico-chemical processes in general; Their relevant apparatus
    • B01J2219/00274—Sequential or parallel reactions; Apparatus and devices for combinatorial chemistry or for making arrays; Chemical library technology
    • B01J2219/00583—Features relative to the processes being carried out
    • B01J2219/00596—Solid-phase processes
    • B—PERFORMING OPERATIONS; TRANSPORTING
    • B01—PHYSICAL OR CHEMICAL PROCESSES OR APPARATUS IN GENERAL
    • B01J—CHEMICAL OR PHYSICAL PROCESSES, e.g. CATALYSIS OR COLLOID CHEMISTRY; THEIR RELEVANT APPARATUS
    • B01J2219/00—Chemical, physical or physico-chemical processes in general; Their relevant apparatus
    • B01J2219/00274—Sequential or parallel reactions; Apparatus and devices for combinatorial chemistry or for making arrays; Chemical library technology
    • B01J2219/00718—Type of compounds synthesised
    • B01J2219/0072—Organic compounds
    • B01J2219/00722—Nucleotides
    • 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
    • C12Q2521/00—Reaction characterised by the enzymatic activity
    • C12Q2521/10—Nucleotidyl transfering
    • C12Q2521/131—Terminal 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
    • C12Q2563/00—Nucleic acid detection characterized by the use of physical, structural and functional properties
    • C12Q2563/116—Nucleic acid detection characterized by the use of physical, structural and functional properties electrical properties of nucleic acids, e.g. impedance, conductivity or resistance
    • 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
    • C12Q2565/00—Nucleic acid analysis characterised by mode or means of detection
    • C12Q2565/60—Detection means characterised by use of a special device
    • C12Q2565/631—Detection means characterised by use of a special device being a biochannel or pore
    • G—PHYSICS
    • G06—COMPUTING; CALCULATING OR COUNTING
    • G06N—COMPUTING ARRANGEMENTS BASED ON SPECIFIC COMPUTATIONAL MODELS
    • G06N3/00—Computing arrangements based on biological models
    • G06N3/12—Computing arrangements based on biological models using genetic models
    • G06N3/123—DNA computing
    • G—PHYSICS
    • G11—INFORMATION STORAGE
    • G11C—STATIC STORES
    • G11C13/00—Digital stores characterised by the use of storage elements not covered by groups G11C11/00, G11C23/00, or G11C25/00
    • G11C13/0002—Digital stores characterised by the use of storage elements not covered by groups G11C11/00, G11C23/00, or G11C25/00 using resistive RAM [RRAM] elements
    • G11C13/0009—RRAM elements whose operation depends upon chemical change
    • G11C13/0014—RRAM elements whose operation depends upon chemical change comprising cells based on organic memory material
    • G—PHYSICS
    • G11—INFORMATION STORAGE
    • G11C—STATIC STORES
    • G11C13/00—Digital stores characterised by the use of storage elements not covered by groups G11C11/00, G11C23/00, or G11C25/00
    • G11C13/0002—Digital stores characterised by the use of storage elements not covered by groups G11C11/00, G11C23/00, or G11C25/00 using resistive RAM [RRAM] elements
    • G11C13/0009—RRAM elements whose operation depends upon chemical change
    • G11C13/0014—RRAM elements whose operation depends upon chemical change comprising cells based on organic memory material
    • G11C13/0019—RRAM elements whose operation depends upon chemical change comprising cells based on organic memory material comprising bio-molecules

Landscapes

  • Life Sciences & Earth Sciences (AREA)
  • Chemical & Material Sciences (AREA)
  • Health & Medical Sciences (AREA)
  • Engineering & Computer Science (AREA)
  • Organic Chemistry (AREA)
  • Molecular Biology (AREA)
  • Physics & Mathematics (AREA)
  • General Health & Medical Sciences (AREA)
  • Genetics & Genomics (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • Biotechnology (AREA)
  • Biochemistry (AREA)
  • Wood Science & Technology (AREA)
  • Zoology (AREA)
  • Biophysics (AREA)
  • Proteomics, Peptides & Aminoacids (AREA)
  • General Engineering & Computer Science (AREA)
  • Evolutionary Biology (AREA)
  • Theoretical Computer Science (AREA)
  • Bioinformatics & Computational Biology (AREA)
  • Microbiology (AREA)
  • Spectroscopy & Molecular Physics (AREA)
  • Analytical Chemistry (AREA)
  • Chemical Kinetics & Catalysis (AREA)
  • Medical Informatics (AREA)
  • Immunology (AREA)
  • General Chemical & Material Sciences (AREA)
  • General Physics & Mathematics (AREA)
  • Pathology (AREA)
  • Electrochemistry (AREA)
  • Software Systems (AREA)
  • Biomedical Technology (AREA)
  • Computing Systems (AREA)
  • Data Mining & Analysis (AREA)
  • Mathematical Physics (AREA)
  • Artificial Intelligence (AREA)
  • Computational Linguistics (AREA)
  • Evolutionary Computation (AREA)
  • Apparatus Associated With Microorganisms And Enzymes (AREA)
  • Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)

Abstract

L'invention concerne un nouveau système de stockage d'informations à l'aide d'un polymère chargé, par exemple de l'ADN, dont les monomères correspondent à un code lisible par machine, par exemple, un code binaire, et qui peuvent être synthétisés et/ou lus à l'aide d'un nouveau dispositif à nanopuce comprenant des nanopores ; de nouveaux procédés et dispositifs pour synthétiser des oligonucléotides dans un format de nanopuce ; de nouveaux procédés pour synthétiser de l'ADN dans le sens 3' vers 5' à l'aide d'une topoisomérase ; de nouveaux procédés et dispositifs pour lire la séquence d'un polymère chargé, par exemple, de l'ADN, par mesure de la variation de la capacité à mesure que le polymère traverse le nanopore ; l'invention concerne en outre des composés, des compositions, des procédés et des dispositifs utiles dans celui-ci.
CA3016037A 2016-02-29 2017-02-28 Procedes, compositions et dispositifs de stockage d'informations Pending CA3016037A1 (fr)

Applications Claiming Priority (5)

Application Number Priority Date Filing Date Title
US201662301538P 2016-02-29 2016-02-29
US62/301,538 2016-02-29
US201662415430P 2016-10-31 2016-10-31
US62/415,430 2016-10-31
PCT/US2017/020044 WO2017151680A2 (fr) 2016-02-29 2017-02-28 Procédés, compositions et dispositifs de stockage d'informations

Publications (1)

Publication Number Publication Date
CA3016037A1 true CA3016037A1 (fr) 2017-09-08

Family

ID=59743186

Family Applications (1)

Application Number Title Priority Date Filing Date
CA3016037A Pending CA3016037A1 (fr) 2016-02-29 2017-02-28 Procedes, compositions et dispositifs de stockage d'informations

Country Status (13)

Country Link
EP (1) EP3423597A4 (fr)
JP (2) JP7546345B2 (fr)
KR (1) KR20180123062A (fr)
CN (1) CN109415766A (fr)
AU (2) AU2017227608B2 (fr)
BR (1) BR112018067903A2 (fr)
CA (1) CA3016037A1 (fr)
IL (1) IL261424B (fr)
MX (2) MX2018010388A (fr)
PH (1) PH12018501843A1 (fr)
RU (2) RU2022101599A (fr)
SG (1) SG11201807334SA (fr)
WO (1) WO2017151680A2 (fr)

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KR20180105699A (ko) 2016-01-28 2018-09-28 로스웰 바이오테크놀로지스 인코포레이티드 대규모 분자 전자소자 센서 어레이들을 이용하여 분석물들을 측정하는 방법들 및 장치
EP3408219B1 (fr) 2016-01-28 2022-08-17 Roswell Biotechnologies, Inc Appareil de séquençage d'adn massivement parallèle
EP3882616A1 (fr) 2016-02-09 2021-09-22 Roswell Biotechnologies, Inc Séquençage de l'adn et du génome sans marqueur électronique
US10597767B2 (en) 2016-02-22 2020-03-24 Roswell Biotechnologies, Inc. Nanoparticle fabrication
US10438662B2 (en) * 2016-02-29 2019-10-08 Iridia, Inc. Methods, compositions, and devices for information storage
US9829456B1 (en) 2016-07-26 2017-11-28 Roswell Biotechnologies, Inc. Method of making a multi-electrode structure usable in molecular sensing devices
WO2018132457A1 (fr) 2017-01-10 2018-07-19 Roswell Biotechnologies, Inc. Procédés et systèmes de stockage de données d'adn
KR102601324B1 (ko) 2017-01-19 2023-11-10 로스웰 바이오테크놀로지스 인코포레이티드 2차원 레이어 재료를 포함하는 솔리드 스테이트 시퀀싱 디바이스들
WO2018200687A1 (fr) 2017-04-25 2018-11-01 Roswell Biotechnologies, Inc. Circuits enzymatiques pour capteurs moléculaires
US10508296B2 (en) 2017-04-25 2019-12-17 Roswell Biotechnologies, Inc. Enzymatic circuits for molecular sensors
EP3622086A4 (fr) 2017-05-09 2021-04-21 Roswell Biotechnologies, Inc Circuits de sonde de liaison pour capteurs moléculaires
WO2018222853A1 (fr) * 2017-05-31 2018-12-06 Molecular Assemblies, Inc. Mémoire d'acide nucléique encodée par un homopolymère
US11612873B2 (en) 2017-05-31 2023-03-28 Molecular Assemblies, Inc. Homopolymer encoded nucleic acid memory
US11174512B2 (en) 2017-05-31 2021-11-16 Molecular Assemblies, Inc. Homopolymer encoded nucleic acid memory
WO2019046589A1 (fr) 2017-08-30 2019-03-07 Roswell Biotechnologies, Inc. Capteurs électroniques moléculaires à enzyme processive pour le stockage de données d'adn
WO2019075100A1 (fr) * 2017-10-10 2019-04-18 Roswell Biotechnologies, Inc. Procédés, appareil et systèmes pour le stockage de données d'adn sans amplification
WO2019136175A1 (fr) 2018-01-04 2019-07-11 Twist Bioscience Corporation Stockage d'informations numériques reposant sur l'adn
EP3547315B1 (fr) * 2018-03-26 2021-01-27 IMEC vzw Procédé de stockage de données
EP3847649A4 (fr) * 2018-09-07 2022-08-31 Iridia, Inc. Systèmes et procédés améliorés d'écriture et de lecture de données mémorisées dans un polymère
EP3946714A1 (fr) * 2019-03-29 2022-02-09 Palogen, Inc. Dispositif à nanopores et procédés de biosynthèse l' utilisant
US11655465B1 (en) 2019-05-02 2023-05-23 Iridia, Inc. Enzymes and systems for synthesizing DNA
US11837302B1 (en) 2020-08-07 2023-12-05 Iridia, Inc. Systems and methods for writing and reading data stored in a polymer using nano-channels
CN114196661B (zh) * 2021-11-04 2023-08-11 北京全式金生物技术股份有限公司 一种重组拓扑异构酶及其在构建测序文库中的应用
CN117079689A (zh) * 2022-05-10 2023-11-17 密码子（杭州）科技有限公司 分子模块组装设备和分子模块组装方法

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Also Published As

Publication number Publication date
MX2022010682A (es) 2022-09-23
CN109415766A (zh) 2019-03-01
AU2017227608B2 (en) 2023-06-01
RU2765308C2 (ru) 2022-01-28
RU2022101599A (ru) 2022-02-25
BR112018067903A2 (pt) 2019-04-16
WO2017151680A2 (fr) 2017-09-08
SG11201807334SA (en) 2018-09-27
JP2019512480A (ja) 2019-05-16
EP3423597A4 (fr) 2020-03-04
RU2018134197A (ru) 2020-04-01
WO2017151680A3 (fr) 2017-10-12
RU2018134197A3 (fr) 2021-07-02
AU2017227608A1 (en) 2018-09-27
EP3423597A2 (fr) 2019-01-09
AU2022268325A1 (en) 2022-12-15
AU2022268325B2 (en) 2024-09-19
IL261424A (en) 2018-10-31
JP2022095695A (ja) 2022-06-28
MX2018010388A (es) 2019-03-06
JP7546345B2 (ja) 2024-09-06
PH12018501843A1 (en) 2019-05-15
KR20180123062A (ko) 2018-11-14
IL261424B (en) 2021-08-31

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