JP6806668B2 - 核酸をプロービングおよびマッピングするためのｒｎａ誘導型システム - Google Patents

核酸をプロービングおよびマッピングするためのｒｎａ誘導型システム Download PDF

Info

Publication number
JP6806668B2
JP6806668B2 JP2017510315A JP2017510315A JP6806668B2 JP 6806668 B2 JP6806668 B2 JP 6806668B2 JP 2017510315 A JP2017510315 A JP 2017510315A JP 2017510315 A JP2017510315 A JP 2017510315A JP 6806668 B2 JP6806668 B2 JP 6806668B2
Authority
JP
Japan
Prior art keywords
nucleic acid
cas9
dna
target nucleic
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.)
Active
Application number
JP2017510315A
Other languages
English (en)
Japanese (ja)
Other versions
JP2017530695A (ja
JP2017530695A5 (enExample
Inventor
ジョージ エム． チャーチ、
ジョージ エム． チャーチ、
フレドリック ヴィニョー、
フレドリック ヴィニョー、
カリム ユー． ミル、
カリム ユー． ミル、
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.)
Harvard University
Original Assignee
Harvard University
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 Harvard University filed Critical Harvard University
Publication of JP2017530695A publication Critical patent/JP2017530695A/ja
Publication of JP2017530695A5 publication Critical patent/JP2017530695A5/ja
Application granted granted Critical
Publication of JP6806668B2 publication Critical patent/JP6806668B2/ja
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
    • C12Q1/6832—Enhancement of hybridisation reaction
    • 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
    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12N—MICROORGANISMS OR ENZYMES; COMPOSITIONS THEREOF; PROPAGATING, PRESERVING, OR MAINTAINING MICROORGANISMS; MUTATION OR GENETIC ENGINEERING; CULTURE MEDIA
    • C12N15/00—Mutation or genetic engineering; DNA or RNA concerning genetic engineering, vectors, e.g. plasmids, or their isolation, preparation or purification; Use of hosts therefor
    • C12N15/09—Recombinant DNA-technology
    • C12N15/11—DNA or RNA fragments; Modified forms thereof; Non-coding nucleic acids having a biological activity
    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12N—MICROORGANISMS OR ENZYMES; COMPOSITIONS THEREOF; PROPAGATING, PRESERVING, OR MAINTAINING MICROORGANISMS; MUTATION OR GENETIC ENGINEERING; CULTURE MEDIA
    • C12N9/00—Enzymes; Proenzymes; Compositions thereof; Processes for preparing, activating, inhibiting, separating or purifying enzymes
    • C12N9/14—Hydrolases (3)
    • C12N9/16—Hydrolases (3) acting on ester bonds (3.1)
    • C12N9/22—Ribonucleases [RNase]; Deoxyribonucleases [DNase]
    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12N—MICROORGANISMS OR ENZYMES; COMPOSITIONS THEREOF; PROPAGATING, PRESERVING, OR MAINTAINING MICROORGANISMS; MUTATION OR GENETIC ENGINEERING; CULTURE MEDIA
    • C12N2310/00—Structure or type of the nucleic acid
    • C12N2310/10—Type of nucleic acid
    • C12N2310/20—Type of nucleic acid involving clustered regularly interspaced short palindromic repeats [CRISPR]
    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12N—MICROORGANISMS OR ENZYMES; COMPOSITIONS THEREOF; PROPAGATING, PRESERVING, OR MAINTAINING MICROORGANISMS; MUTATION OR GENETIC ENGINEERING; CULTURE MEDIA
    • C12N2800/00—Nucleic acids vectors
    • C12N2800/80—Vectors containing sites for inducing double-stranded breaks, e.g. meganuclease restriction sites

Landscapes

  • Life Sciences & Earth Sciences (AREA)
  • Chemical & Material Sciences (AREA)
  • Health & Medical Sciences (AREA)
  • Organic Chemistry (AREA)
  • Engineering & Computer Science (AREA)
  • Wood Science & Technology (AREA)
  • Zoology (AREA)
  • Genetics & Genomics (AREA)
  • Proteomics, Peptides & Aminoacids (AREA)
  • Molecular Biology (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • Biotechnology (AREA)
  • General Engineering & Computer Science (AREA)
  • Microbiology (AREA)
  • Biochemistry (AREA)
  • General Health & Medical Sciences (AREA)
  • Biomedical Technology (AREA)
  • Physics & Mathematics (AREA)
  • Biophysics (AREA)
  • Immunology (AREA)
  • Analytical Chemistry (AREA)
  • Medicinal Chemistry (AREA)
  • Chemical Kinetics & Catalysis (AREA)
  • Plant Pathology (AREA)
  • Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)
  • Cell Biology (AREA)
JP2017510315A 2014-08-19 2015-08-19 核酸をプロービングおよびマッピングするためのｒｎａ誘導型システム Active JP6806668B2 (ja)

Applications Claiming Priority (3)

Application Number Priority Date Filing Date Title
US201462039341P 2014-08-19 2014-08-19
US62/039,341 2014-08-19
PCT/US2015/045805 WO2016028843A2 (en) 2014-08-19 2015-08-19 Rna-guided systems for probing and mapping of nucleic acids

Related Child Applications (1)

Application Number Title Priority Date Filing Date
JP2020202325A Division JP2021040656A (ja) 2014-08-19 2020-12-04 核酸をプロービングおよびマッピングするためのｒｎａ誘導型システム

Publications (3)

Publication Number Publication Date
JP2017530695A JP2017530695A (ja) 2017-10-19
JP2017530695A5 JP2017530695A5 (enExample) 2018-09-27
JP6806668B2 true JP6806668B2 (ja) 2021-01-06

Family

ID=55351372

Family Applications (2)

Application Number Title Priority Date Filing Date
JP2017510315A Active JP6806668B2 (ja) 2014-08-19 2015-08-19 核酸をプロービングおよびマッピングするためのｒｎａ誘導型システム
JP2020202325A Pending JP2021040656A (ja) 2014-08-19 2020-12-04 核酸をプロービングおよびマッピングするためのｒｎａ誘導型システム

Family Applications After (1)

Application Number Title Priority Date Filing Date
JP2020202325A Pending JP2021040656A (ja) 2014-08-19 2020-12-04 核酸をプロービングおよびマッピングするためのｒｎａ誘導型システム

Country Status (8)

Country Link
US (2) US20180320226A1 (enExample)
EP (1) EP3183358B1 (enExample)
JP (2) JP6806668B2 (enExample)
KR (1) KR20170036801A (enExample)
CN (1) CN107075546B (enExample)
AU (1) AU2015305570C1 (enExample)
CA (1) CA2958292A1 (enExample)
WO (1) WO2016028843A2 (enExample)

Families Citing this family (168)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US10323236B2 (en) 2011-07-22 2019-06-18 President And Fellows Of Harvard College Evaluation and improvement of nuclease cleavage specificity
CN111500680B (zh) 2013-06-25 2024-04-16 普罗格诺西斯生物科学公司 检测样品中生物靶标的空间分布的方法和系统
US9163284B2 (en) 2013-08-09 2015-10-20 President And Fellows Of Harvard College Methods for identifying a target site of a Cas9 nuclease
US9359599B2 (en) 2013-08-22 2016-06-07 President And Fellows Of Harvard College Engineered transcription activator-like effector (TALE) domains and uses thereof
US9322037B2 (en) 2013-09-06 2016-04-26 President And Fellows Of Harvard College Cas9-FokI fusion proteins and uses thereof
US9340799B2 (en) 2013-09-06 2016-05-17 President And Fellows Of Harvard College MRNA-sensing switchable gRNAs
US9526784B2 (en) 2013-09-06 2016-12-27 President And Fellows Of Harvard College Delivery system for functional nucleases
US11053481B2 (en) 2013-12-12 2021-07-06 President And Fellows Of Harvard College Fusions of Cas9 domains and nucleic acid-editing domains
US10240146B2 (en) 2014-07-30 2019-03-26 President And Fellows Of Harvard College Probe library construction
EP4079847A1 (en) 2014-07-30 2022-10-26 President And Fellows Of Harvard College Cas9 proteins including ligand-dependent inteins
CN107406875B (zh) 2014-12-20 2021-12-07 阿克生物公司 使用CRISPR/Cas系统蛋白靶向消减、富集、和分割核酸的组合物及方法
EP4321627A3 (en) 2015-04-10 2024-04-17 10x Genomics Sweden AB Spatially distinguished, multiplex nucleic acid analysis of biological specimens
WO2017031360A1 (en) 2015-08-19 2017-02-23 Arc Bio, Llc Capture of nucleic acids using a nucleic acid-guided nuclease-based system
CA3035810A1 (en) * 2015-09-02 2017-03-09 University Of Massachusetts Detection of gene loci with crispr arrayed repeats and/or polychromatic single guide ribonucleic acids
ES2788176T3 (es) * 2015-09-24 2020-10-20 Sigma Aldrich Co Llc Métodos y reactivos para la detección de proximidad molecular usando proteínas de unión a ácido nucleico guiadas por ARN
IL294014B2 (en) 2015-10-23 2024-07-01 Harvard College Nucleobase editors and uses thereof
WO2017134303A1 (en) 2016-02-05 2017-08-10 Ludwig-Maximilians-Universität München Molecular identification with sub-nanometer localization accuracy
ES2835101T3 (es) * 2016-02-10 2021-06-21 Univ Michigan Regents Detección de ácidos nucleicos
CN109312336A (zh) * 2016-02-23 2019-02-05 阿克生物公司 用于靶标检测的方法和组合物
US10337051B2 (en) 2016-06-16 2019-07-02 The Regents Of The University Of California Methods and compositions for detecting a target RNA
WO2017222453A1 (en) 2016-06-21 2017-12-28 Hauling Thomas Nucleic acid sequencing
WO2018027078A1 (en) 2016-08-03 2018-02-08 President And Fellows Of Harard College Adenosine nucleobase editors and uses thereof
US11661590B2 (en) 2016-08-09 2023-05-30 President And Fellows Of Harvard College Programmable CAS9-recombinase fusion proteins and uses thereof
US11542509B2 (en) 2016-08-24 2023-01-03 President And Fellows Of Harvard College Incorporation of unnatural amino acids into proteins using base editing
GB201616590D0 (en) 2016-09-29 2016-11-16 Oxford Nanopore Technologies Limited Method
WO2018064371A1 (en) 2016-09-30 2018-04-05 The Regents Of The University Of California Rna-guided nucleic acid modifying enzymes and methods of use thereof
CA3038982A1 (en) 2016-09-30 2018-04-05 The Regents Of The University Of California Rna-guided nucleic acid modifying enzymes and methods of use thereof
SG11201903089RA (en) 2016-10-14 2019-05-30 Harvard College Aav delivery of nucleobase editors
US10640810B2 (en) 2016-10-19 2020-05-05 Drexel University Methods of specifically labeling nucleic acids using CRISPR/Cas
US11761028B2 (en) 2016-10-19 2023-09-19 Drexel University Methods of specifically labeling nucleic acids using CRISPR/Cas
US11261483B2 (en) 2016-11-09 2022-03-01 Board Of Trustees Of The University Of Illinois Programmable DNA-guided artificial restriction enzymes
EP3541945A4 (en) * 2016-11-18 2020-12-09 Genedit Inc. COMPOSITIONS AND METHODS OF MODIFICATION OF TARGET NUCLEIC ACIDS
AU2017370751B2 (en) * 2016-12-09 2023-11-09 Ultivue, Inc. Improved methods for multiplex imaging using labeled nucleic acid imaging agents
US10745677B2 (en) 2016-12-23 2020-08-18 President And Fellows Of Harvard College Editing of CCR5 receptor gene to protect against HIV infection
WO2018129226A1 (en) * 2017-01-05 2018-07-12 Virginia Commonwealth University System, method, computer-accessible medium and apparatus for dna mapping
EP3592768B1 (en) 2017-03-08 2024-12-25 The Regents of The University of Michigan Analyte detection
EP3592381A1 (en) 2017-03-09 2020-01-15 President and Fellows of Harvard College Cancer vaccine
EP3592853A1 (en) 2017-03-09 2020-01-15 President and Fellows of Harvard College Suppression of pain by gene editing
CN110914310A (zh) 2017-03-10 2020-03-24 哈佛大学的校长及成员们 胞嘧啶至鸟嘌呤碱基编辑器
GB2575930A (en) 2017-03-23 2020-01-29 Harvard College Nucleobase editors comprising nucleic acid programmable DNA binding proteins
WO2018209320A1 (en) 2017-05-12 2018-11-15 President And Fellows Of Harvard College Aptazyme-embedded guide rnas for use with crispr-cas9 in genome editing and transcriptional activation
WO2018218150A1 (en) 2017-05-26 2018-11-29 President And Fellows Of Harvard College Systems and methods for high-throughput image-based screening
US10947599B2 (en) 2017-06-13 2021-03-16 Genetics Research, Llc Tumor mutation burden
US10527608B2 (en) 2017-06-13 2020-01-07 Genetics Research, Llc Methods for rare event detection
CA3222176A1 (en) 2017-06-13 2018-12-20 Genetics Research, Llc, D/B/A Zs Genetics, Inc. Isolation of target nucleic acids
US10081829B1 (en) 2017-06-13 2018-09-25 Genetics Research, Llc Detection of targeted sequence regions
WO2018231963A1 (en) * 2017-06-13 2018-12-20 Genetics Research, Llc, D/B/A Zs Genetics, Inc. Selective protection of nucleic acids
US11466264B2 (en) 2017-06-28 2022-10-11 New England Biolabs, Inc. In vitro cleavage of DNA using argonaute
US11732274B2 (en) 2017-07-28 2023-08-22 President And Fellows Of Harvard College Methods and compositions for evolving base editors using phage-assisted continuous evolution (PACE)
CN111278848B (zh) 2017-08-04 2023-06-27 北京大学 特异性识别甲基化修饰dna碱基的tale rvd及其应用
US11905552B2 (en) 2017-08-04 2024-02-20 Keck Graduate Institute Of Applied Life Sciences Immobilized RNPs for sequence-specific nucleic acid capture and digital detection
EP3676376B1 (en) 2017-08-30 2025-01-15 President and Fellows of Harvard College High efficiency base editors comprising gam
US11649442B2 (en) 2017-09-08 2023-05-16 The Regents Of The University Of California RNA-guided endonuclease fusion polypeptides and methods of use thereof
US11633732B2 (en) 2017-10-04 2023-04-25 The Broad Institute, Inc. CRISPR effector system based diagnostics
US11597965B2 (en) 2017-10-06 2023-03-07 10X Genomics, Inc. RNA templated ligation
US10014390B1 (en) 2017-10-10 2018-07-03 Globalfoundries Inc. Inner spacer formation for nanosheet field-effect transistors with tall suspensions
WO2019079347A1 (en) 2017-10-16 2019-04-25 The Broad Institute, Inc. USES OF BASIC EDITORS ADENOSINE
EP3704239A4 (en) 2017-11-01 2021-08-18 The Regents of The University of California CASZ COMPOSITIONS AND METHODS OF USE
US12227753B2 (en) 2017-11-01 2025-02-18 The Regents Of The University Of California CasY compositions and methods of use
WO2019089808A1 (en) 2017-11-01 2019-05-09 The Regents Of The University Of California Class 2 crispr/cas compositions and methods of use
US10253365B1 (en) * 2017-11-22 2019-04-09 The Regents Of The University Of California Type V CRISPR/Cas effector proteins for cleaving ssDNAs and detecting target DNAs
WO2019118949A1 (en) 2017-12-15 2019-06-20 The Broad Institute, Inc. Systems and methods for predicting repair outcomes in genetic engineering
US11268092B2 (en) 2018-01-12 2022-03-08 GenEdit, Inc. Structure-engineered guide RNA
GB201801768D0 (en) 2018-02-02 2018-03-21 Oxford Nanopore Tech Ltd Synthesis method
JP7178607B2 (ja) * 2018-02-23 2022-11-28 学校法人麻布獣医学園 アミロイドタンパク質を抽出する試薬
US20220010293A1 (en) * 2018-02-23 2022-01-13 Pioneer Hi-Bred International, Inc. Novel cas9 orthologs
WO2019168950A1 (en) * 2018-02-27 2019-09-06 The University Of North Carolina At Chapel Hill Methods and compositions for treating angelman syndrome
WO2019226953A1 (en) 2018-05-23 2019-11-28 The Broad Institute, Inc. Base editors and uses thereof
GB201808554D0 (en) * 2018-05-24 2018-07-11 Oxford Nanopore Tech Ltd Method
CN112639121A (zh) * 2018-06-26 2021-04-09 博德研究所 基于crispr双切口酶的扩增组合物、系统和方法
WO2020028729A1 (en) 2018-08-01 2020-02-06 Mammoth Biosciences, Inc. Programmable nuclease compositions and methods of use thereof
US11519033B2 (en) 2018-08-28 2022-12-06 10X Genomics, Inc. Method for transposase-mediated spatial tagging and analyzing genomic DNA in a biological sample
EP3844272A1 (en) 2018-08-28 2021-07-07 Flagship Pioneering Innovations VI, LLC Methods and compositions for modulating a genome
WO2020076976A1 (en) 2018-10-10 2020-04-16 Readcoor, Inc. Three-dimensional spatial molecular indexing
WO2020092453A1 (en) 2018-10-29 2020-05-07 The Broad Institute, Inc. Nucleobase editors comprising geocas9 and uses thereof
US20220073980A1 (en) * 2018-11-29 2022-03-10 Xgenomes Corp. Sequencing by coalescence
US20220033888A1 (en) 2018-12-10 2022-02-03 10X Genomics, Inc. Generating capture probes for spatial analysis
WO2020123742A1 (en) 2018-12-13 2020-06-18 President And Fellows Of Harvard College Amplification methods and systems for merfish and other applications
CN113166744B (zh) 2018-12-14 2025-02-07 先锋国际良种公司 用于基因组编辑的新颖crispr-cas系统
WO2020125762A1 (en) * 2018-12-20 2020-06-25 Peking University Compositions and methods for highly efficient genetic screening using barcoded guide rna constructs
EP3931313A2 (en) 2019-01-04 2022-01-05 Mammoth Biosciences, Inc. Programmable nuclease improvements and compositions and methods for nucleic acid amplification and detection
US11649485B2 (en) 2019-01-06 2023-05-16 10X Genomics, Inc. Generating capture probes for spatial analysis
US11926867B2 (en) 2019-01-06 2024-03-12 10X Genomics, Inc. Generating capture probes for spatial analysis
US12351837B2 (en) 2019-01-23 2025-07-08 The Broad Institute, Inc. Supernegatively charged proteins and uses thereof
DE112020001342T5 (de) 2019-03-19 2022-01-13 President and Fellows of Harvard College Verfahren und Zusammensetzungen zum Editing von Nukleotidsequenzen
WO2020198640A1 (en) * 2019-03-27 2020-10-01 Massachusetts Institute Of Technology Programmable imaging methods and compositions
WO2020214842A1 (en) 2019-04-17 2020-10-22 The Broad Institute, Inc. Adenine base editors with reduced off-target effects
CN119433097A (zh) * 2019-04-19 2025-02-14 哈佛学院院长及董事 基于成像的混合crispr筛选
WO2020243579A1 (en) 2019-05-30 2020-12-03 10X Genomics, Inc. Methods of detecting spatial heterogeneity of a biological sample
SG11202111878RA (en) 2019-05-31 2021-11-29 10X Genomics Inc Method of detecting target nucleic acid molecules
WO2021072328A1 (en) 2019-10-10 2021-04-15 The Broad Institute, Inc. Methods and compositions for prime editing rna
NL2024019B1 (en) * 2019-10-15 2021-06-17 Univ Delft Tech Detection of a target polynucleotide
CN112708660B (zh) * 2019-10-24 2024-05-03 广州微远医疗器械有限公司 Crispr-poct检测组合物及其应用
WO2021087203A1 (en) * 2019-10-31 2021-05-06 President And Fellows Of Harvard College On-chip assay strategy for the development of electrochemical readout for crispr-cas diagnostics
US12139705B2 (en) * 2019-11-04 2024-11-12 California Institute Of Technology Deep learning enabled spatial optical barcodes for pooled library screens
WO2021092433A2 (en) 2019-11-08 2021-05-14 10X Genomics, Inc. Enhancing specificity of analyte binding
GB201919032D0 (en) 2019-12-20 2020-02-05 Cartana Ab Method of detecting an analyte
ES2946357T3 (es) 2019-12-23 2023-07-17 10X Genomics Inc Métodos para el análisis espacial usando ligación con molde de ARN
WO2021133842A1 (en) 2019-12-23 2021-07-01 10X Genomics, Inc. Compositions and methods for using fixed biological samples in partition-based assays
US12365942B2 (en) 2020-01-13 2025-07-22 10X Genomics, Inc. Methods of decreasing background on a spatial array
US12405264B2 (en) 2020-01-17 2025-09-02 10X Genomics, Inc. Electrophoretic system and method for analyte capture
US11702693B2 (en) 2020-01-21 2023-07-18 10X Genomics, Inc. Methods for printing cells and generating arrays of barcoded cells
US11732299B2 (en) 2020-01-21 2023-08-22 10X Genomics, Inc. Spatial assays with perturbed cells
US20210230681A1 (en) 2020-01-24 2021-07-29 10X Genomics, Inc. Methods for spatial analysis using proximity ligation
US12076701B2 (en) 2020-01-31 2024-09-03 10X Genomics, Inc. Capturing oligonucleotides in spatial transcriptomics
US12110548B2 (en) 2020-02-03 2024-10-08 10X Genomics, Inc. Bi-directional in situ analysis
US11898205B2 (en) 2020-02-03 2024-02-13 10X Genomics, Inc. Increasing capture efficiency of spatial assays
US12110541B2 (en) 2020-02-03 2024-10-08 10X Genomics, Inc. Methods for preparing high-resolution spatial arrays
US11732300B2 (en) 2020-02-05 2023-08-22 10X Genomics, Inc. Increasing efficiency of spatial analysis in a biological sample
US12129516B2 (en) 2020-02-07 2024-10-29 10X Genomics, Inc. Quantitative and automated permeabilization performance evaluation for spatial transcriptomics
US12281357B1 (en) 2020-02-14 2025-04-22 10X Genomics, Inc. In situ spatial barcoding
WO2021167986A1 (en) 2020-02-17 2021-08-26 10X Genomics, Inc. In situ analysis of chromatin interaction
EP4484571A3 (en) 2020-02-21 2025-03-19 10X Genomics, Inc. Methods and compositions for integrated in situ spatial assay
US11891654B2 (en) 2020-02-24 2024-02-06 10X Genomics, Inc. Methods of making gene expression libraries
EP4114941A4 (en) 2020-03-04 2024-10-16 Flagship Pioneering Innovations VI, LLC IMPROVED METHODS AND COMPOSITIONS FOR MODULATING A GENOME
US12188085B2 (en) 2020-03-05 2025-01-07 10X Genomics, Inc. Three-dimensional spatial transcriptomics with sequencing readout
EP4139485B1 (en) 2020-04-22 2023-09-06 10X Genomics, Inc. Methods for spatial analysis using targeted rna depletion
GB2614813B (en) 2020-05-08 2025-05-07 Harvard College Methods and compositions for simultaneous editing of both strands of a target double-stranded nucleotide sequence
WO2021231263A2 (en) * 2020-05-12 2021-11-18 Singular Genomics Systems, Inc. Nucleic acid amplification methods
AU2021275906A1 (en) 2020-05-22 2022-12-22 10X Genomics, Inc. Spatial analysis to detect sequence variants
WO2021236929A1 (en) 2020-05-22 2021-11-25 10X Genomics, Inc. Simultaneous spatio-temporal measurement of gene expression and cellular activity
US12031177B1 (en) 2020-06-04 2024-07-09 10X Genomics, Inc. Methods of enhancing spatial resolution of transcripts
ES2981265T3 (es) 2020-06-08 2024-10-08 10X Genomics Inc Métodos para determinar un margen quirúrgico y métodos de uso del mismo
US12209273B2 (en) 2020-06-12 2025-01-28 10X Genomics, Inc. Nucleic acid assays using click chemistry bioconjugation
EP4450639B1 (en) 2020-06-25 2025-10-15 10X Genomics, Inc. Spatial analysis of dna methylation
US11761038B1 (en) 2020-07-06 2023-09-19 10X Genomics, Inc. Methods for identifying a location of an RNA in a biological sample
US12209280B1 (en) 2020-07-06 2025-01-28 10X Genomics, Inc. Methods of identifying abundance and location of an analyte in a biological sample using second strand synthesis
US11981960B1 (en) 2020-07-06 2024-05-14 10X Genomics, Inc. Spatial analysis utilizing degradable hydrogels
US12297499B2 (en) 2020-08-17 2025-05-13 10X Genomics, Inc. Multicomponent nucleic acid probes for sample analysis
US20220049303A1 (en) 2020-08-17 2022-02-17 Readcoor, Llc Methods and systems for spatial mapping of genetic variants
US11981958B1 (en) 2020-08-20 2024-05-14 10X Genomics, Inc. Methods for spatial analysis using DNA capture
JP2022048030A (ja) * 2020-09-14 2022-03-25 キヤノン株式会社 標的核酸の検出方法およびキット
US11926822B1 (en) 2020-09-23 2024-03-12 10X Genomics, Inc. Three-dimensional spatial analysis
CN116783302A (zh) * 2020-10-09 2023-09-19 深圳华大基因科技有限公司 用于基于生物发光的测序的方法和组合物
US20240287048A1 (en) * 2020-10-16 2024-08-29 The Broad Institute, Inc. Substituted acyl sulfonamides for treating cancer
US12071667B2 (en) 2020-11-04 2024-08-27 10X Genomics, Inc. Sequence analysis using meta-stable nucleic acid molecules
US11827935B1 (en) 2020-11-19 2023-11-28 10X Genomics, Inc. Methods for spatial analysis using rolling circle amplification and detection probes
US20240102113A1 (en) * 2020-12-02 2024-03-28 Arizona Board Of Regents On Behalf Of Arizona State University Silica-based chromatographic processes for isolating nucleic acid-protein complexes and detecting target nucleic acids
AU2021409136A1 (en) 2020-12-21 2023-06-29 10X Genomics, Inc. Methods, compositions, and systems for capturing probes and/or barcodes
WO2022147340A1 (en) * 2020-12-31 2022-07-07 The Board Of Trustees Of The University Of Illinois Specific detection of nucleic acid sequences using activate cleave & count (acc) technology
US12060603B2 (en) 2021-01-19 2024-08-13 10X Genomics, Inc. Methods for internally controlled in situ assays using padlock probes
US12275984B2 (en) 2021-03-02 2025-04-15 10X Genomics, Inc. Sequential hybridization and quenching
CN113025638B (zh) * 2021-03-16 2022-07-12 国家纳米科学中心 一种基于双链核酸的折纸结构及其制备方法和应用
EP4428246A3 (en) 2021-04-14 2024-11-27 10X Genomics, Inc. Methods of measuring mislocalization of an analyte
EP4320271B1 (en) 2021-05-06 2025-03-19 10X Genomics, Inc. Methods for increasing resolution of spatial analysis
EP4347879B1 (en) 2021-06-03 2025-02-19 10X Genomics, Inc. Methods, compositions, kits, and systems for enhancing analyte capture for spatial analysis
US20240240234A1 (en) * 2021-06-03 2024-07-18 The Regents Of The University Of California Methods for measuring protein-dna interactions with long-read dna sequencing
US20240279719A1 (en) * 2021-06-17 2024-08-22 The Board Of Trustees Of The University Of Illinois Crispr cascade
US12139751B2 (en) 2021-07-30 2024-11-12 10X Genomics, Inc. Circularizable probes for in situ analysis
EP4326900B1 (en) 2021-07-30 2024-09-04 10X Genomics, Inc. Methods and compositions for synchronizing reactions in situ
US12391984B2 (en) 2021-08-03 2025-08-19 10X Genomics, Inc. Compositions and methods for rolling circle amplification
US12460251B2 (en) 2021-08-03 2025-11-04 10X Genomics, Inc. Stabilization and/or compaction of nucleic acid molecules
EP4446426A3 (en) 2021-08-16 2024-11-13 10x Genomics, Inc. Probes comprising a split barcode region and methods of use
WO2023034489A1 (en) 2021-09-01 2023-03-09 10X Genomics, Inc. Methods, compositions, and kits for blocking a capture probe on a spatial array
WO2023055776A1 (en) * 2021-09-29 2023-04-06 Michael David Austin Devices and methods for interrogating macromolecules
GB202114183D0 (en) * 2021-10-04 2021-11-17 Oxford Nanopore Tech Ltd Method
WO2023086880A1 (en) 2021-11-10 2023-05-19 10X Genomics, Inc. Methods, compositions, and kits for determining the location of an analyte in a biological sample
WO2023102118A2 (en) 2021-12-01 2023-06-08 10X Genomics, Inc. Methods, compositions, and systems for improved in situ detection of analytes and spatial analysis
CN114634968B (zh) * 2022-02-28 2024-05-31 复旦大学 基于Argonaute蛋白的场效应晶体管核酸传感器及其制备方法和应用
WO2023172915A1 (en) 2022-03-08 2023-09-14 10X Genomics, Inc. In situ code design methods for minimizing optical crowding
WO2023192616A1 (en) 2022-04-01 2023-10-05 10X Genomics, Inc. Compositions and methods for targeted masking of autofluorescence
CN115112741B (zh) * 2022-04-08 2024-05-14 北京科技大学 石墨烯场效应晶体管检测rna的方法及应用
JP2025516589A (ja) 2022-05-11 2025-05-30 １０エックス ジェノミクス インコーポレイテッド インサイチュー配列決定のための組成物及び方法
JPWO2023229010A1 (enExample) 2022-05-26 2023-11-30
WO2023245190A1 (en) 2022-06-17 2023-12-21 10X Genomics, Inc. Catalytic de-crosslinking of samples for in situ analysis
WO2024040060A1 (en) 2022-08-16 2024-02-22 10X Genomics, Inc. Ap50 polymerases and uses thereof
WO2024151940A1 (en) * 2023-01-13 2024-07-18 President And Fellows Of Harvard College Highly multiplexed digital nucleic acid determination using melting temperature
US12319956B2 (en) 2023-07-31 2025-06-03 10X Genomics, Inc. Methods and systems for targeted RNA cleavage and target RNA-primed rolling circle amplification

Family Cites Families (53)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US4230558A (en) 1978-10-02 1980-10-28 Coulter Electronics, Inc. Single drop separator
US4318846A (en) 1979-09-07 1982-03-09 Syva Company Novel ether substituted fluorescein polyamino acid compounds as fluorescers and quenchers
US4605735A (en) 1983-02-14 1986-08-12 Wakunaga Seiyaku Kabushiki Kaisha Oligonucleotide derivatives
US4757141A (en) 1985-08-26 1988-07-12 Applied Biosystems, Incorporated Amino-derivatized phosphite and phosphate linking agents, phosphoramidite precursors, and useful conjugates thereof
US5091519A (en) 1986-05-01 1992-02-25 Amoco Corporation Nucleotide compositions with linking groups
US4811218A (en) 1986-06-02 1989-03-07 Applied Biosystems, Inc. Real time scanning electrophoresis apparatus for DNA sequencing
US5151507A (en) 1986-07-02 1992-09-29 E. I. Du Pont De Nemours And Company Alkynylamino-nucleotides
DE3813278A1 (de) 1988-01-12 1989-07-20 Boehringer Mannheim Gmbh Verfahren zum nachweis von nukleinsaeuren
US5354657A (en) 1988-01-12 1994-10-11 Boehringer Mannheim Gmbh Process for the highly specific detection of nucleic acids in solid
US5066580A (en) 1988-08-31 1991-11-19 Becton Dickinson And Company Xanthene dyes that emit to the red of fluorescein
DE3836656A1 (de) 1988-10-27 1990-05-03 Boehringer Mannheim Gmbh Neue digoxigenin-derivate und ihre verwendung
US5366860A (en) 1989-09-29 1994-11-22 Applied Biosystems, Inc. Spectrally resolvable rhodamine dyes for nucleic acid sequence determination
US5188934A (en) 1989-11-14 1993-02-23 Applied Biosystems, Inc. 4,7-dichlorofluorescein dyes as molecular probes
US5073562A (en) 1990-05-10 1991-12-17 G. D. Searle & Co. Alkoxy-substituted dihydrobenzopyran-2-carboxylic acids and derivatives thereof
US5817462A (en) 1995-02-21 1998-10-06 Applied Spectral Imaging Method for simultaneous detection of multiple fluorophores for in situ hybridization and multicolor chromosome painting and banding
US5981179A (en) 1991-11-14 1999-11-09 Digene Diagnostics, Inc. Continuous amplification reaction
US5654419A (en) 1994-02-01 1997-08-05 The Regents Of The University Of California Fluorescent labels and their use in separations
US5604097A (en) 1994-10-13 1997-02-18 Spectragen, Inc. Methods for sorting polynucleotides using oligonucleotide tags
US5795782A (en) 1995-03-17 1998-08-18 President & Fellows Of Harvard College Characterization of individual polymer molecules based on monomer-interface interactions
US6458530B1 (en) 1996-04-04 2002-10-01 Affymetrix Inc. Selecting tag nucleic acids
US5847162A (en) 1996-06-27 1998-12-08 The Perkin Elmer Corporation 4, 7-Dichlororhodamine dyes
US5800996A (en) 1996-05-03 1998-09-01 The Perkin Elmer Corporation Energy transfer dyes with enchanced fluorescence
US6322901B1 (en) 1997-11-13 2001-11-27 Massachusetts Institute Of Technology Highly luminescent color-selective nano-crystalline materials
US5990479A (en) 1997-11-25 1999-11-23 Regents Of The University Of California Organo Luminescent semiconductor nanocrystal probes for biological applications and process for making and using such probes
US6207392B1 (en) 1997-11-25 2001-03-27 The Regents Of The University Of California Semiconductor nanocrystal probes for biological applications and process for making and using such probes
US6426513B1 (en) 1998-09-18 2002-07-30 Massachusetts Institute Of Technology Water-soluble thiol-capped nanocrystals
US6251303B1 (en) 1998-09-18 2001-06-26 Massachusetts Institute Of Technology Water-soluble fluorescent nanocrystals
NO986133D0 (no) * 1998-12-23 1998-12-23 Preben Lexow FremgangsmÕte for DNA-sekvensering
US6649138B2 (en) 2000-10-13 2003-11-18 Quantum Dot Corporation Surface-modified semiconductive and metallic nanoparticles having enhanced dispersibility in aqueous media
US6576291B2 (en) 2000-12-08 2003-06-10 Massachusetts Institute Of Technology Preparation of nanocrystallites
JP2005517382A (ja) * 2001-06-08 2005-06-16 ユー．エス． ジェノミクス， インコーポレイテッド ニックトランスレーションを使用する、核酸を分析するための方法および生成物
ATE556845T1 (de) 2001-07-20 2012-05-15 Life Technologies Corp Lumineszierende nanopartikel und ihre herstellung
WO2003039477A2 (en) * 2001-11-07 2003-05-15 U.S. Army Medical Research Institute Of Infections Diseases Department Of The Army Generation of virus-like particles and demonstration of lipid rafts as sites of filovirus entry and budding
WO2007092538A2 (en) * 2006-02-07 2007-08-16 President And Fellows Of Harvard College Methods for making nucleotide probes for sequencing and synthesis
RU2394915C2 (ru) 2006-03-24 2010-07-20 Александр Борисович Четверин Бесконтактные способы обнаружения молекулярных колоний, наборы реагентов и устройство для их осуществления
CA2671850A1 (en) * 2006-12-08 2008-06-19 Massachusetts Institute Of Technology Delivery of nanoparticles and/or agents to cells
EP2073005A1 (en) * 2007-12-21 2009-06-24 Deutsches Rheuma-Forschungszentrum Berlin Method for in-vitro detecting pathogenic T helper cells and pharmaceutical compositions for treating autoimmune diseases
US8603741B2 (en) * 2010-02-18 2013-12-10 Pacific Biosciences Of California, Inc. Single molecule sequencing with two distinct chemistry steps
US20110257385A1 (en) * 2010-02-23 2011-10-20 Life Technologies Corporation Methods for flip-strand immobilizing and sequencing nucleic acids
BR112013032232A2 (pt) * 2011-06-16 2016-09-20 Caris Life Sciences Switzerland Holdings S A R L método de caracterização de câncer através do uso de biomarcador de ácido nucleico
US9637739B2 (en) * 2012-03-20 2017-05-02 Vilnius University RNA-directed DNA cleavage by the Cas9-crRNA complex
WO2013176772A1 (en) * 2012-05-25 2013-11-28 The Regents Of The University Of California Methods and compositions for rna-directed target dna modification and for rna-directed modulation of transcription
US9914967B2 (en) * 2012-06-05 2018-03-13 President And Fellows Of Harvard College Spatial sequencing of nucleic acids using DNA origami probes
RU2014153918A (ru) * 2012-06-12 2016-07-27 Дженентек, Инк. Способы и композиции для получения условно нокаутных аллелей
PL2931898T3 (pl) * 2012-12-12 2016-09-30 Le Cong Projektowanie i optymalizacja systemów, sposoby i kompozycje do manipulacji sekwencją z domenami funkcjonalnymi
US8697359B1 (en) 2012-12-12 2014-04-15 The Broad Institute, Inc. CRISPR-Cas systems and methods for altering expression of gene products
EP4481048A3 (en) 2012-12-17 2025-02-26 President and Fellows of Harvard College Rna-guided human genome engineering
ES2901396T3 (es) * 2013-03-14 2022-03-22 Caribou Biosciences Inc Composiciones y métodos de ácidos nucleicos dirigidos a ácido nucleico
US9902973B2 (en) * 2013-04-11 2018-02-27 Caribou Biosciences, Inc. Methods of modifying a target nucleic acid with an argonaute
US9873907B2 (en) * 2013-05-29 2018-01-23 Agilent Technologies, Inc. Method for fragmenting genomic DNA using CAS9
US10822606B2 (en) * 2013-09-27 2020-11-03 The Regents Of The University Of California Optimized small guide RNAs and methods of use
US9850525B2 (en) * 2014-01-29 2017-12-26 Agilent Technologies, Inc. CAS9-based isothermal method of detection of specific DNA sequence
DK3102722T3 (da) * 2014-02-04 2020-11-16 Jumpcode Genomics Inc Genom fraktionering

Also Published As

Publication number Publication date
CN107075546B (zh) 2021-08-31
AU2015305570A1 (en) 2017-03-09
EP3183358A4 (en) 2018-03-07
KR20170036801A (ko) 2017-04-03
AU2015305570B2 (en) 2020-03-12
CN107075546A (zh) 2017-08-18
EP3183358A2 (en) 2017-06-28
US20180320226A1 (en) 2018-11-08
JP2021040656A (ja) 2021-03-18
US20210102244A1 (en) 2021-04-08
JP2017530695A (ja) 2017-10-19
CA2958292A1 (en) 2016-02-25
EP3183358B1 (en) 2020-10-07
WO2016028843A3 (en) 2016-07-14
US12018321B2 (en) 2024-06-25
WO2016028843A2 (en) 2016-02-25
AU2015305570C1 (en) 2020-07-23

Similar Documents

Publication Publication Date Title
US12018321B2 (en) RNA-guided systems for probing and mapping of nucleic acids
JP7008850B2 (ja) 核酸ターゲティング核酸の組成物および方法
CN112154216B (zh) 生物分子探针以及检测基因和蛋白表达的方法
CN110088299B (zh) 通过纳米孔指导的核酸检测方法
JP7100680B2 (ja) ゲノム適用および治療適用のための、核酸分子のクローン複製および増幅のためのシステムおよび方法
ES2886923T3 (es) Métodos y composición para generar sondas de ADN de secuencia única, marcaje de sondas de ADN y el uso de estas sondas
KR101602305B1 (ko) 게놈 획득 및 소실에 대한 다중 분석법
US20100062434A1 (en) Detection of chromosomal inversions
CN112534063A (zh) 用于核酸测序的方法、系统和组合物
EP3652345A2 (en) Sequencing method for genomic rearrangement detection
US20240328990A1 (en) Systems and methods for analyzing a target molecule
US20220073980A1 (en) Sequencing by coalescence
WO2023116575A1 (zh) 用于表征目标多核苷酸的衔接体、方法及其用途
US20200115742A1 (en) Methods of Imaging of Nucleic Acid Sequences using Triplex-Forming Oligonucleotides
US9758815B2 (en) Kits for characterization of chromosomal inversions using probes
Nilsson et al. Application of Padlock and Selector Probes in Molecular Medicine
HK40050771A (en) Methods, systems, and compositions for nucleic acid sequencing
Bauer Preparing and sequencing ultra-long DNA molecules from single chromosomes

Legal Events

Date Code Title Description
A521 Request for written amendment filed

Free format text: JAPANESE INTERMEDIATE CODE: A523

Effective date: 20180820

A621 Written request for application examination

Free format text: JAPANESE INTERMEDIATE CODE: A621

Effective date: 20180820

A131 Notification of reasons for refusal

Free format text: JAPANESE INTERMEDIATE CODE: A131

Effective date: 20190723

A521 Request for written amendment filed

Free format text: JAPANESE INTERMEDIATE CODE: A523

Effective date: 20191023

A131 Notification of reasons for refusal

Free format text: JAPANESE INTERMEDIATE CODE: A131

Effective date: 20200331

A521 Request for written amendment filed

Free format text: JAPANESE INTERMEDIATE CODE: A523

Effective date: 20200605

TRDD Decision of grant or rejection written
A01 Written decision to grant a patent or to grant a registration (utility model)

Free format text: JAPANESE INTERMEDIATE CODE: A01

Effective date: 20201104

A61 First payment of annual fees (during grant procedure)

Free format text: JAPANESE INTERMEDIATE CODE: A61

Effective date: 20201204

R150 Certificate of patent or registration of utility model

Ref document number: 6806668

Country of ref document: JP

Free format text: JAPANESE INTERMEDIATE CODE: R150

R250 Receipt of annual fees

Free format text: JAPANESE INTERMEDIATE CODE: R250

R250 Receipt of annual fees

Free format text: JAPANESE INTERMEDIATE CODE: R250

R250 Receipt of annual fees

Free format text: JAPANESE INTERMEDIATE CODE: R250