AU2020375212B2 - Method for mapping rolling circle amplification products - Google Patents

Method for mapping rolling circle amplification products

Info

Publication number
AU2020375212B2
AU2020375212B2 AU2020375212A AU2020375212A AU2020375212B2 AU 2020375212 B2 AU2020375212 B2 AU 2020375212B2 AU 2020375212 A AU2020375212 A AU 2020375212A AU 2020375212 A AU2020375212 A AU 2020375212A AU 2020375212 B2 AU2020375212 B2 AU 2020375212B2
Authority
AU
Australia
Prior art keywords
rca
grid
sequence
products
rca products
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.)
Active
Application number
AU2020375212A
Other languages
English (en)
Other versions
AU2020375212A1 (en
Inventor
Simon Fredriksson
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.)
Pixelgen Technologies AB
Original Assignee
Pixelgen Technologies AB
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 Pixelgen Technologies AB filed Critical Pixelgen Technologies AB
Publication of AU2020375212A1 publication Critical patent/AU2020375212A1/en
Application granted granted Critical
Publication of AU2020375212B2 publication Critical patent/AU2020375212B2/en
Active legal-status Critical Current
Anticipated expiration legal-status Critical

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
    • 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
    • C12Q1/6844—Nucleic acid amplification reactions
    • 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
    • C12Q1/6804—Nucleic acid analysis using immunogens
    • 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
    • C12Q1/6841—In situ hybridisation
    • 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
    • C12Q2525/00—Reactions involving modified oligonucleotides, nucleic acids, or nucleotides
    • C12Q2525/10—Modifications characterised by
    • C12Q2525/179—Modifications characterised by incorporating arbitrary or random nucleotide sequences
    • 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
    • C12Q2531/00—Reactions of nucleic acids characterised by
    • C12Q2531/10—Reactions of nucleic acids characterised by the purpose being amplify/increase the copy number of target nucleic acid
    • C12Q2531/125—Rolling circle
    • 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
    • C12Q2563/179—Nucleic acid detection characterized by the use of physical, structural and functional properties the label being a nucleic acid
    • 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
    • C12Q2565/50—Detection characterised by immobilisation to a surface
    • 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
    • C12Q2565/50—Detection characterised by immobilisation to a surface
    • C12Q2565/537—Detection characterised by immobilisation to a surface characterised by the capture oligonucleotide acting as a primer
    • 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
    • C12Q2600/00—Oligonucleotides characterized by their use
    • C12Q2600/16—Primer sets for multiplex assays

Landscapes

  • Chemical & Material Sciences (AREA)
  • Life Sciences & Earth Sciences (AREA)
  • Organic Chemistry (AREA)
  • Engineering & Computer Science (AREA)
  • Zoology (AREA)
  • Wood Science & Technology (AREA)
  • Proteomics, Peptides & Aminoacids (AREA)
  • Health & Medical Sciences (AREA)
  • Biophysics (AREA)
  • General Engineering & Computer Science (AREA)
  • Immunology (AREA)
  • Microbiology (AREA)
  • Molecular Biology (AREA)
  • Analytical Chemistry (AREA)
  • Physics & Mathematics (AREA)
  • Genetics & Genomics (AREA)
  • Biochemistry (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • Biotechnology (AREA)
  • General Health & Medical Sciences (AREA)
  • Chemical Kinetics & Catalysis (AREA)
  • Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)
AU2020375212A 2019-10-28 2020-10-27 Method for mapping rolling circle amplification products Active AU2020375212B2 (en)

Applications Claiming Priority (3)

Application Number Priority Date Filing Date Title
US201962926907P 2019-10-28 2019-10-28
US62/926,907 2019-10-28
PCT/IB2020/060062 WO2021084419A1 (en) 2019-10-28 2020-10-27 Method for mapping rolling circle amplification products

Publications (2)

Publication Number Publication Date
AU2020375212A1 AU2020375212A1 (en) 2022-04-28
AU2020375212B2 true AU2020375212B2 (en) 2026-02-05

Family

ID=73172763

Family Applications (1)

Application Number Title Priority Date Filing Date
AU2020375212A Active AU2020375212B2 (en) 2019-10-28 2020-10-27 Method for mapping rolling circle amplification products

Country Status (8)

Country Link
US (3) US12252741B2 (https=)
EP (1) EP4051810B1 (https=)
JP (1) JP7684984B2 (https=)
CN (1) CN114616344B (https=)
AU (1) AU2020375212B2 (https=)
CA (1) CA3157211A1 (https=)
DK (1) DK4051810T3 (https=)
WO (1) WO2021084419A1 (https=)

Families Citing this family (5)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
WO2022032195A2 (en) 2020-08-06 2022-02-10 Singular Genomics Systems, Inc. Spatial sequencing
EP4121561A4 (en) 2020-08-06 2024-04-17 Singular Genomics Systems, Inc. Methods for in situ transcriptomics and proteomics
EP4303315B1 (en) 2021-03-30 2024-11-06 Pixelgen Technologies Ab Spatial mapping by serial primer extension
EP4720332A1 (en) 2023-06-01 2026-04-08 Singular Genomics Systems, Inc. Methods and probes for detecting polynucleotide sequences in cells and tissues
WO2025158200A1 (en) 2024-01-25 2025-07-31 Pixelgen Technologies Ab Method for spatial mapping of cell targets

Family Cites Families (25)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US5948902A (en) 1997-11-20 1999-09-07 South Alabama Medical Science Foundation Antisense oligonucleotides to human serine/threonine protein phosphatase genes
US20050118616A1 (en) * 2002-08-16 2005-06-02 Kawashima Tadashi R. Amplification of target nucleotide sequence without polymerase chain reaction
AU2004232976B2 (en) * 2003-04-18 2011-02-10 Becton, Dickinson And Company Immuno-amplification
US20050233340A1 (en) 2004-04-20 2005-10-20 Barrett Michael T Methods and compositions for assessing CpG methylation
US8916351B2 (en) * 2005-01-04 2014-12-23 Hitachi Chemical Co., Ltd. Primer generation rolling circle amplification
US8481698B2 (en) 2009-03-19 2013-07-09 The President And Fellows Of Harvard College Parallel proximity ligation event analysis
EP2633081B1 (en) * 2010-10-29 2017-01-11 Olink Bioscience AB Proximity ligation technology for western blot applications
JP6069224B2 (ja) 2011-01-31 2017-02-01 アプライズ バイオ， インコーポレイテッド 細胞において複数のエピトープを同定する方法
EP3736281A1 (en) 2011-02-18 2020-11-11 Bio-Rad Laboratories, Inc. Compositions and methods for molecular labeling
GB201201547D0 (en) 2012-01-30 2012-03-14 Olink Ab Method and product
WO2014076209A1 (en) * 2012-11-14 2014-05-22 Olink Ab Localised rca-based amplification method
CN105745334B (zh) * 2013-09-30 2019-12-10 吴迪 通过使用邻近条形编码分析分子复合物的概况的方法
EP3058091B1 (en) 2013-10-18 2020-03-25 The Broad Institute, Inc. Spatial and cellular mapping of biomolecules in situ by high-throughput sequencing
GB201320145D0 (en) * 2013-11-14 2014-01-01 Olink Ab Localised RCA-based amplification method using a padlock-probe
US20150298091A1 (en) 2014-04-21 2015-10-22 President And Fellows Of Harvard College Systems and methods for barcoding nucleic acids
US9909167B2 (en) * 2014-06-23 2018-03-06 The Board Of Trustees Of The Leland Stanford Junior University On-slide staining by primer extension
ES2891085T3 (es) 2015-01-30 2022-01-26 Harvard College Obtención de imágenes sin microscopio
WO2017044893A1 (en) 2015-09-11 2017-03-16 The Broad Institute, Inc. Dna microscopy
US11092607B2 (en) * 2015-10-28 2021-08-17 The Board Institute, Inc. Multiplex analysis of single cell constituents
EP4050112A1 (en) 2016-06-21 2022-08-31 10X Genomics, Inc. Nucleic acid sequencing
EP3583214B1 (en) * 2017-02-02 2023-11-22 New York Genome Center, Inc. Methods and compositions for identifying or quantifying targets in a biological sample
GB201718681D0 (en) * 2017-11-13 2017-12-27 Evox Therapeutics Ltd Protein engineered extracellular vesicles
EP3954782A1 (en) 2017-11-15 2022-02-16 10X Genomics, Inc. Functionalized gel beads
EP4477758B1 (en) 2018-11-30 2026-04-22 Illumina, Inc. Analysis of multiple analytes using a single assay
CN114787348B (zh) 2019-09-30 2025-09-19 耶鲁大学 用于空间组学测序的确定性条形码

Non-Patent Citations (1)

* Cited by examiner, † Cited by third party
Title
DI WU, JUNHONG YAN, XIA SHEN, YU SUN, MåNS THULIN, YANLING CAI, LOTTA WIK, QIUJIN SHEN, JOHAN OELRICH, XIAOYAN QIAN, K. LOUIS: "Profiling surface proteins on individual exosomes using a proximity barcoding assay", NATURE COMMUNICATIONS, vol. 10, no. 1, 1 December 2019 (2019-12-01), XP055767129, DOI: 10.1038/s41467-019-11486-1 *

Also Published As

Publication number Publication date
EP4051810B1 (en) 2024-08-28
US12252741B2 (en) 2025-03-18
CA3157211A1 (en) 2021-05-06
CN114616344B (zh) 2026-03-31
AU2020375212A1 (en) 2022-04-28
JP2022554421A (ja) 2022-12-28
US20250305038A1 (en) 2025-10-02
EP4051810A1 (en) 2022-09-07
DK4051810T3 (da) 2024-09-09
US12404545B1 (en) 2025-09-02
JP7684984B2 (ja) 2025-05-28
WO2021084419A1 (en) 2021-05-06
US20250277259A1 (en) 2025-09-04
CN114616344A (zh) 2022-06-10
US20230027467A1 (en) 2023-01-26

Similar Documents

Publication Publication Date Title
AU2020375212B2 (en) Method for mapping rolling circle amplification products
AU2011305445B2 (en) Direct capture, amplification and sequencing of target DNA using immobilized primers
US20240336959A1 (en) Method for making a physical map of a population of barcoded particles
CA2945358C (en) Systems and methods for clonal replication and amplification of nucleic acid molecules for genomic and therapeutic applications
WO2001059161A2 (en) Analyte assays employing universal arrays
US12416040B2 (en) Spatial mapping by serial primer extension
JP2021512597A (ja) 単一分子のための一本鎖環状ｄｎａ鋳型の作製
US6027893A (en) Method of identifying a nucleic acid using triple helix formation of adjacently annealed probes
WO2017096394A1 (en) High-efficiency hybrid capture compositions, and methods
US20250171828A1 (en) Rolling circle amplification product having multiple free ends
CN116635536A (zh) 用于制作条形码化颗粒群的物理图谱的方法
US20250059530A1 (en) Labeling and analysis method for single-cell nucleic acid
JP2023535436A (ja) 多重溶液中タンパク質アレイを用いてスクリーニングした検定試料の多重配列決定用二重バーコードインデックス