JP7684984B2 - ローリングサークル増幅産物をマッピングするための方法 - Google Patents

ローリングサークル増幅産物をマッピングするための方法 Download PDF

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JP7684984B2
JP7684984B2 JP2022551433A JP2022551433A JP7684984B2 JP 7684984 B2 JP7684984 B2 JP 7684984B2 JP 2022551433 A JP2022551433 A JP 2022551433A JP 2022551433 A JP2022551433 A JP 2022551433A JP 7684984 B2 JP7684984 B2 JP 7684984B2
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フレドリクソン，サイモン
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ピクセルゲン テクノロジーズ エービー
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    • 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
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    • 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
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    • 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
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    • 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
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    • 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
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    • 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
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    • C12Q2565/00—Nucleic acid analysis characterised by mode or means of detection
    • C12Q2565/50—Detection characterised by immobilisation to a surface
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    • 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
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    • C12Q2600/00—Oligonucleotides characterized by their use
    • C12Q2600/16—Primer sets for multiplex assays

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  • Organic Chemistry (AREA)
  • Engineering & Computer Science (AREA)
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  • Proteomics, Peptides & Aminoacids (AREA)
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  • Microbiology (AREA)
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  • Bioinformatics & Cheminformatics (AREA)
  • Biotechnology (AREA)
  • General Health & Medical Sciences (AREA)
  • Chemical Kinetics & Catalysis (AREA)
  • Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)
JP2022551433A 2019-10-28 2020-10-27 ローリングサークル増幅産物をマッピングするための方法 Active JP7684984B2 (ja)

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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

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JP2022554421A JP2022554421A (ja) 2022-12-28
JPWO2021084419A5 JPWO2021084419A5 (https=) 2023-10-30
JP2022554421A5 JP2022554421A5 (https=) 2023-10-30
JP7684984B2 true JP7684984B2 (ja) 2025-05-28

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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

Citations (2)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
JP2007525174A (ja) 2003-04-18 2007-09-06 ベクトン・ディキンソン・アンド・カンパニー 免疫増幅
WO2012057689A1 (en) 2010-10-29 2012-05-03 Ge Healthcare Bio-Sciences Ab Proximity ligation technology for western blot applications

Family Cites Families (23)

* 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
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
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

Patent Citations (2)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
JP2007525174A (ja) 2003-04-18 2007-09-06 ベクトン・ディキンソン・アンド・カンパニー 免疫増幅
WO2012057689A1 (en) 2010-10-29 2012-05-03 Ge Healthcare Bio-Sciences Ab Proximity ligation technology for western blot applications

Non-Patent Citations (3)

* Cited by examiner, † Cited by third party
Title
GREENWOOD, Christina et al.，"Proximity assays for sensitive quantification of proteins"，Biomolecular Detection and Quantification，2015年，Vol. 4，pp. 10-16，DOI:10.1016/j.bdq.2015.04.002
GUSTAFSDOTTIR, Sigrun M. et al.，"Proximity ligation assays for sensitive and specific protein analyses"，Analytical Biochemistry，2005年，Vol. 345，pp. 2-9，DOI:10.1016/j.ab.2005.01.018
WU, Di et al.，"Profiling surface proteins on individual exosomes using a proximity barcoding assay"，Nature Communications，2019年08月26日，Vol. 10, Article 3854，DOI:10.1038/s41467-019-11486-1

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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
WO2021084419A1 (en) 2021-05-06
US20250277259A1 (en) 2025-09-04
AU2020375212B2 (en) 2026-02-05
CN114616344A (zh) 2022-06-10
US20230027467A1 (en) 2023-01-26

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