JP2024522090A - ２つの光チャネルを使用してヌクレオチドを配列決定するためのシステム及び方法 - Google Patents

２つの光チャネルを使用してヌクレオチドを配列決定するためのシステム及び方法 Download PDF

Info

Publication number
JP2024522090A
JP2024522090A JP2023572625A JP2023572625A JP2024522090A JP 2024522090 A JP2024522090 A JP 2024522090A JP 2023572625 A JP2023572625 A JP 2023572625A JP 2023572625 A JP2023572625 A JP 2023572625A JP 2024522090 A JP2024522090 A JP 2024522090A
Authority
JP
Japan
Prior art keywords
fluorescent label
light
nucleotide
detector
sequencing
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
JP2023572625A
Other languages
English (en)
Japanese (ja)
Other versions
JP2024522090A5 (enExample
Inventor
シャオハイ リウ，
マイケル カリンガム，
ロバート， エズラ ラングロワ，
パトリック マコーリー，
Original Assignee
イルミナ インコーポレイテッド
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 イルミナ インコーポレイテッド filed Critical イルミナ インコーポレイテッド
Publication of JP2024522090A publication Critical patent/JP2024522090A/ja
Publication of JP2024522090A5 publication Critical patent/JP2024522090A5/ja
Pending legal-status Critical Current

Links

Classifications

    • 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
    • C12Q1/6813—Hybridisation assays
    • C12Q1/6816—Hybridisation assays characterised by the detection means
    • C12Q1/6825—Nucleic acid detection involving sensors
    • 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
    • C12Q1/6874—Methods for sequencing involving nucleic acid arrays, e.g. sequencing by hybridisation
    • G—PHYSICS
    • G01—MEASURING; TESTING
    • G01N—INVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
    • G01N21/00—Investigating or analysing materials by the use of optical means, i.e. using sub-millimetre waves, infrared, visible or ultraviolet light
    • G01N21/62—Systems in which the material investigated is excited whereby it emits light or causes a change in wavelength of the incident light
    • G01N21/63—Systems in which the material investigated is excited whereby it emits light or causes a change in wavelength of the incident light optically excited
    • G01N21/64—Fluorescence; Phosphorescence
    • G01N21/6428—Measuring fluorescence of fluorescent products of reactions or of fluorochrome labelled reactive substances, e.g. measuring quenching effects, using measuring "optrodes"
    • G—PHYSICS
    • G01—MEASURING; TESTING
    • G01N—INVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
    • G01N21/00—Investigating or analysing materials by the use of optical means, i.e. using sub-millimetre waves, infrared, visible or ultraviolet light
    • G01N21/62—Systems in which the material investigated is excited whereby it emits light or causes a change in wavelength of the incident light
    • G01N21/63—Systems in which the material investigated is excited whereby it emits light or causes a change in wavelength of the incident light optically excited
    • G01N21/64—Fluorescence; Phosphorescence
    • G01N21/645—Specially adapted constructive features of fluorimeters
    • G01N21/6456—Spatial resolved fluorescence measurements; Imaging
    • G—PHYSICS
    • G01—MEASURING; TESTING
    • G01N—INVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
    • G01N21/00—Investigating or analysing materials by the use of optical means, i.e. using sub-millimetre waves, infrared, visible or ultraviolet light
    • G01N21/62—Systems in which the material investigated is excited whereby it emits light or causes a change in wavelength of the incident light
    • G01N21/63—Systems in which the material investigated is excited whereby it emits light or causes a change in wavelength of the incident light optically excited
    • G01N21/64—Fluorescence; Phosphorescence
    • G01N21/6486—Measuring fluorescence of biological material, e.g. DNA, RNA, cells
    • 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
    • C12Q2563/107—Nucleic acid detection characterized by the use of physical, structural and functional properties fluorescence
    • 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
    • C12Q2565/607—Detection means characterised by use of a special device being a sensor, e.g. electrode
    • G—PHYSICS
    • G01—MEASURING; TESTING
    • G01N—INVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
    • G01N21/00—Investigating or analysing materials by the use of optical means, i.e. using sub-millimetre waves, infrared, visible or ultraviolet light
    • G01N21/62—Systems in which the material investigated is excited whereby it emits light or causes a change in wavelength of the incident light
    • G01N21/63—Systems in which the material investigated is excited whereby it emits light or causes a change in wavelength of the incident light optically excited
    • G01N21/64—Fluorescence; Phosphorescence
    • G01N2021/6417—Spectrofluorimetric devices
    • G01N2021/6421—Measuring at two or more wavelengths
    • G—PHYSICS
    • G01—MEASURING; TESTING
    • G01N—INVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
    • G01N21/00—Investigating or analysing materials by the use of optical means, i.e. using sub-millimetre waves, infrared, visible or ultraviolet light
    • G01N21/62—Systems in which the material investigated is excited whereby it emits light or causes a change in wavelength of the incident light
    • G01N21/63—Systems in which the material investigated is excited whereby it emits light or causes a change in wavelength of the incident light optically excited
    • G01N21/64—Fluorescence; Phosphorescence
    • G01N21/6428—Measuring fluorescence of fluorescent products of reactions or of fluorochrome labelled reactive substances, e.g. measuring quenching effects, using measuring "optrodes"
    • G01N2021/6439—Measuring fluorescence of fluorescent products of reactions or of fluorochrome labelled reactive substances, e.g. measuring quenching effects, using measuring "optrodes" with indicators, stains, dyes, tags, labels, marks
    • G01N2021/6441—Measuring fluorescence of fluorescent products of reactions or of fluorochrome labelled reactive substances, e.g. measuring quenching effects, using measuring "optrodes" with indicators, stains, dyes, tags, labels, marks with two or more labels

Landscapes

  • Chemical & Material Sciences (AREA)
  • Health & Medical Sciences (AREA)
  • Life Sciences & Earth Sciences (AREA)
  • Physics & Mathematics (AREA)
  • Immunology (AREA)
  • Proteomics, Peptides & Aminoacids (AREA)
  • Analytical Chemistry (AREA)
  • Organic Chemistry (AREA)
  • Biochemistry (AREA)
  • General Health & Medical Sciences (AREA)
  • Engineering & Computer Science (AREA)
  • Zoology (AREA)
  • Wood Science & Technology (AREA)
  • General Physics & Mathematics (AREA)
  • Nuclear Medicine, Radiotherapy & Molecular Imaging (AREA)
  • Pathology (AREA)
  • Molecular Biology (AREA)
  • Microbiology (AREA)
  • Biotechnology (AREA)
  • Biophysics (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • General Engineering & Computer Science (AREA)
  • Genetics & Genomics (AREA)
  • Chemical Kinetics & Catalysis (AREA)
  • Optics & Photonics (AREA)
  • Biomedical Technology (AREA)
  • Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)
  • Investigating, Analyzing Materials By Fluorescence Or Luminescence (AREA)
  • Apparatus Associated With Microorganisms And Enzymes (AREA)
JP2023572625A 2021-06-03 2022-05-26 ２つの光チャネルを使用してヌクレオチドを配列決定するためのシステム及び方法 Pending JP2024522090A (ja)

Applications Claiming Priority (3)

Application Number Priority Date Filing Date Title
US17/338,590 US20220403450A1 (en) 2021-06-03 2021-06-03 Systems and methods for sequencing nucleotides using two optical channels
US17/338,590 2021-06-03
PCT/US2022/031152 WO2022256229A1 (en) 2021-06-03 2022-05-26 Systems and methods for sequencing nucleotides using two optical channels

Publications (2)

Publication Number Publication Date
JP2024522090A true JP2024522090A (ja) 2024-06-11
JP2024522090A5 JP2024522090A5 (enExample) 2025-05-28

Family

ID=82100623

Family Applications (1)

Application Number Title Priority Date Filing Date
JP2023572625A Pending JP2024522090A (ja) 2021-06-03 2022-05-26 ２つの光チャネルを使用してヌクレオチドを配列決定するためのシステム及び方法

Country Status (11)

Country Link
US (1) US20220403450A1 (enExample)
EP (1) EP4347885A1 (enExample)
JP (1) JP2024522090A (enExample)
KR (1) KR20240017854A (enExample)
CN (1) CN117460842A (enExample)
AU (1) AU2022286318A1 (enExample)
BR (1) BR112023025269A2 (enExample)
CA (1) CA3217004A1 (enExample)
IL (1) IL307901A (enExample)
MX (1) MX2023014280A (enExample)
WO (1) WO2022256229A1 (enExample)

Families Citing this family (9)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
JP2024516191A (ja) 2021-05-05 2024-04-12 イルミナ ケンブリッジ リミテッド ビス－ホウ素縮合複素環を含有する蛍光色素及び配列決定における使用
AU2023246772A1 (en) 2022-03-29 2024-01-18 Illumina Inc. Chromenoquinoline dyes and uses in sequencing
CN119604513A (zh) 2022-06-28 2025-03-11 因美纳公司 含有稠合四环双硼杂环的荧光染料及其在测序中的用途
WO2024206407A2 (en) 2023-03-29 2024-10-03 Illumina, Inc. Naphthalimide dyes and uses in nucleic acid sequencing
WO2025090596A1 (en) 2023-10-26 2025-05-01 Illumina, Inc. 4,5-substituted naphthalimide dyes and uses in nucleic acid sequencing
US20250163505A1 (en) 2023-11-17 2025-05-22 Illumina, Inc. Conjugated polymers or polymer dots as fluorescent labels
US20250197933A1 (en) 2023-12-18 2025-06-19 Illumina, Inc. Hydrogel nanoparticles as labeling scaffold in sequencing
US20250215494A1 (en) 2023-12-29 2025-07-03 Illumina, Inc. Tricyclic polymethine dyes for nucleic acid sequencing
WO2025160569A1 (en) * 2024-01-26 2025-07-31 Pumpkinseed Technologies, Inc. Methods and systems for nucleic acid sequence determination

Family Cites Families (34)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
JPH0874B2 (ja) 1990-07-27 1996-01-10 アイシス・ファーマシューティカルス・インコーポレーテッド 遺伝子発現を検出および変調するヌクレアーゼ耐性、ピリミジン修飾オリゴヌクレオチド
US5432272A (en) 1990-10-09 1995-07-11 Benner; Steven A. Method for incorporating into a DNA or RNA oligonucleotide using nucleotides bearing heterocyclic bases
AU3222793A (en) 1991-11-26 1993-06-28 Gilead Sciences, Inc. Enhanced triple-helix and double-helix formation with oligomers containing modified pyrimidines
DK0691980T3 (da) 1993-03-30 1997-12-29 Sanofi Sa 7-deazapurinmodifiderende oligonukleotider
EP0695306A1 (en) 1993-04-19 1996-02-07 Gilead Sciences, Inc. Enhanced triple-helix and double-helix formation with oligomers containing modified purines
US5846719A (en) 1994-10-13 1998-12-08 Lynx Therapeutics, Inc. Oligonucleotide tags for sorting and identification
US6150510A (en) 1995-11-06 2000-11-21 Aventis Pharma Deutschland Gmbh Modified oligonucleotides, their preparation and their use
US5750341A (en) 1995-04-17 1998-05-12 Lynx Therapeutics, Inc. DNA sequencing by parallel oligonucleotide extensions
WO1998023733A2 (en) 1996-11-27 1998-06-04 University Of Washington Thermostable polymerases having altered fidelity
JP2002503954A (ja) 1997-04-01 2002-02-05 グラクソ、グループ、リミテッド 核酸増幅法
US6969488B2 (en) 1998-05-22 2005-11-29 Solexa, Inc. System and apparatus for sequential processing of analytes
US6329178B1 (en) 2000-01-14 2001-12-11 University Of Washington DNA polymerase mutant having one or more mutations in the active site
US7057026B2 (en) 2001-12-04 2006-06-06 Solexa Limited Labelled nucleotides
WO2004018497A2 (en) 2002-08-23 2004-03-04 Solexa Limited Modified nucleotides for polynucleotide sequencing
GB0321306D0 (en) 2003-09-11 2003-10-15 Solexa Ltd Modified polymerases for improved incorporation of nucleotide analogues
EP1701785A1 (en) 2004-01-07 2006-09-20 Solexa Ltd. Modified molecular arrays
US20070048748A1 (en) 2004-09-24 2007-03-01 Li-Cor, Inc. Mutant polymerases for sequencing and genotyping
WO2006064199A1 (en) 2004-12-13 2006-06-22 Solexa Limited Improved method of nucleotide detection
EP1888743B1 (en) 2005-05-10 2011-08-03 Illumina Cambridge Limited Improved polymerases
CA2615323A1 (en) 2005-06-06 2007-12-21 454 Life Sciences Corporation Paired end sequencing
GB0514936D0 (en) 2005-07-20 2005-08-24 Solexa Ltd Preparation of templates for nucleic acid sequencing
US7329860B2 (en) 2005-11-23 2008-02-12 Illumina, Inc. Confocal imaging methods and apparatus
WO2009097368A2 (en) * 2008-01-28 2009-08-06 Complete Genomics, Inc. Methods and compositions for efficient base calling in sequencing reactions
US8965076B2 (en) 2010-01-13 2015-02-24 Illumina, Inc. Data processing system and methods
US9029103B2 (en) 2010-08-27 2015-05-12 Illumina Cambridge Limited Methods for sequencing polynucleotides
US8951781B2 (en) 2011-01-10 2015-02-10 Illumina, Inc. Systems, methods, and apparatuses to image a sample for biological or chemical analysis
CN204832037U (zh) 2012-04-03 2015-12-02 伊鲁米那股份有限公司 检测设备
DE102014006003A1 (de) 2014-04-28 2015-10-29 Merck Patent Gmbh Leuchtstoffe
GB201508858D0 (en) * 2015-05-22 2015-07-01 Illumina Cambridge Ltd Polymethine compounds with long stokes shifts and their use as fluorescent labels
GB201516987D0 (en) 2015-09-25 2015-11-11 Illumina Cambridge Ltd Polymethine compounds and their use as fluorescent labels
US10385214B2 (en) 2016-09-30 2019-08-20 Illumina Cambridge Limited Fluorescent dyes and their uses as biomarkers
BR112019014683A2 (pt) * 2017-03-07 2020-02-18 Illumina, Inc. Sequenciamento com dois canais óticos, com fonte de luz única
CA3103636A1 (en) 2019-03-01 2020-09-10 Illumina Cambridge Limited Tertiary amine substituted coumarin compounds and their uses as fluorescent labels
WO2020178231A1 (en) * 2019-03-01 2020-09-10 Illumina, Inc. Multiplexed fluorescent detection of analytes

Also Published As

Publication number Publication date
KR20240017854A (ko) 2024-02-08
US20220403450A1 (en) 2022-12-22
WO2022256229A9 (en) 2023-12-21
MX2023014280A (es) 2024-01-17
CN117460842A (zh) 2024-01-26
AU2022286318A1 (en) 2023-11-09
IL307901A (en) 2023-12-01
CA3217004A1 (en) 2022-12-08
BR112023025269A2 (pt) 2024-02-20
EP4347885A1 (en) 2024-04-10
WO2022256229A1 (en) 2022-12-08

Similar Documents

Publication Publication Date Title
JP2024522090A (ja) ２つの光チャネルを使用してヌクレオチドを配列決定するためのシステム及び方法
US20260118271A1 (en) Amplitude modulation for accelerated base calling
US20250084402A1 (en) Methods of preparing libraries for sequencing and methods of analysis
CN106715715A (zh) 多功能寡核苷酸
US20230295719A1 (en) Paired-end sequencing
US20230183799A1 (en) Parallel sample and index sequencing
WO2025061942A1 (en) Sequencing error identification and correction
CN118922558A (zh) 平行样品和索引测序
WO2025061922A1 (en) Methods for sequencing
WO2025006466A1 (en) Systems and methods of sequencing polynucleotides with four labeled nucleotides
WO2025006460A9 (en) Systems and methods of sequencing polynucleotides with modified bases
WO2025006464A1 (en) Systems and methods of sequencing polynucleotides with alternative scatterplots
WO2025190902A1 (en) Improving base calling quality scores
HK40000881A (en) Super-resolution sequencing

Legal Events

Date Code Title Description
A521 Request for written amendment filed

Free format text: JAPANESE INTERMEDIATE CODE: A523

Effective date: 20250520

A621 Written request for application examination

Free format text: JAPANESE INTERMEDIATE CODE: A621

Effective date: 20250520