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WO2025097008A3 - Mitochondrial dna intrinsic controls for use in msre-dependent dna methylation analysis - Google Patents

Mitochondrial dna intrinsic controls for use in msre-dependent dna methylation analysis

Info

Publication number
WO2025097008A3
WO2025097008A3 PCT/US2024/054200 US2024054200W WO2025097008A3 WO 2025097008 A3 WO2025097008 A3 WO 2025097008A3 US 2024054200 W US2024054200 W US 2024054200W WO 2025097008 A3 WO2025097008 A3 WO 2025097008A3
Authority
WO
WIPO (PCT)
Prior art keywords
msre
dependent
context
present
assays
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
PCT/US2024/054200
Other languages
French (fr)
Other versions
WO2025097008A2 (en
Inventor
Michael Edward DODGE
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.)
Nucleix Ltd
Original Assignee
Nucleix Ltd
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 Nucleix Ltd filed Critical Nucleix Ltd
Publication of WO2025097008A2 publication Critical patent/WO2025097008A2/en
Publication of WO2025097008A3 publication Critical patent/WO2025097008A3/en
Pending 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
    • C12Q1/6806—Preparing nucleic acids for analysis, e.g. for polymerase chain reaction [PCR] assay

Landscapes

  • Chemical & Material Sciences (AREA)
  • Organic Chemistry (AREA)
  • Life Sciences & Earth Sciences (AREA)
  • Analytical Chemistry (AREA)
  • Zoology (AREA)
  • Wood Science & Technology (AREA)
  • Proteomics, Peptides & Aminoacids (AREA)
  • Health & Medical Sciences (AREA)
  • Engineering & Computer Science (AREA)
  • Biophysics (AREA)
  • Immunology (AREA)
  • Microbiology (AREA)
  • Molecular Biology (AREA)
  • Biotechnology (AREA)
  • Physics & Mathematics (AREA)
  • Chemical Kinetics & Catalysis (AREA)
  • Biochemistry (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • General Engineering & Computer Science (AREA)
  • General Health & Medical Sciences (AREA)
  • Genetics & Genomics (AREA)
  • Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)

Abstract

The present application provides tools for rapidly, accurately, and accessibly quantifying endonuclease activity. The system is broadly capable of qualifying enzymatic reagents, detecting chemical inhibitors, and optimizing reaction conditions. Minimal adaptations could further enable use in high-throughput screens for enhancers or inhibitors of specific endonucleases. In this context, the present invention demonstrates the utility of mitochondrial DNA (mtDNA) - which is abundant in plasma as cell-free DNA ("cfDNA") and naturally has minimal methylation - as an endogenous digestion control system in MSRE-dependent methylation assays. While demonstrated in the context of qPCR, the control endogenous digestion control systems of the present invention are broadly applicable to MSRE-dependent methylation assays generally, and particularly to those assays that use a multiplex of MSREs having different recognition sequences.
PCT/US2024/054200 2023-11-01 2024-11-01 Mitochondrial dna intrinsic controls for use in msre-dependent dna methylation analysis Pending WO2025097008A2 (en)

Applications Claiming Priority (4)

Application Number Priority Date Filing Date Title
US202363595280P 2023-11-01 2023-11-01
US63/595,280 2023-11-01
US202363595724P 2023-11-02 2023-11-02
US63/595,724 2023-11-02

Publications (2)

Publication Number Publication Date
WO2025097008A2 WO2025097008A2 (en) 2025-05-08
WO2025097008A3 true WO2025097008A3 (en) 2025-08-07

Family

ID=95583309

Family Applications (1)

Application Number Title Priority Date Filing Date
PCT/US2024/054200 Pending WO2025097008A2 (en) 2023-11-01 2024-11-01 Mitochondrial dna intrinsic controls for use in msre-dependent dna methylation analysis

Country Status (1)

Country Link
WO (1) WO2025097008A2 (en)

Citations (5)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US20030027141A1 (en) * 1999-10-08 2003-02-06 Board Of Regents, The University Of Texas System Combinatorial oligonucleotide PCR: a method for rapid, global expression analysis
US20160017418A1 (en) * 2012-11-26 2016-01-21 Clinical Genomics Pty Ltd Method of detecting methylation
US20200048697A1 (en) * 2017-04-19 2020-02-13 Singlera Genomics, Inc. Compositions and methods for detection of genomic variance and DNA methylation status
WO2020192680A1 (en) * 2019-03-25 2020-10-01 The Chinese University Of Hong Kong Determining linear and circular forms of circulating nucleic acids
US20220403471A1 (en) * 2019-08-27 2022-12-22 Exact Sciences Corporation Characterizing methylated dna, rna, and proteins in subjects suspected of having lung neoplasia

Patent Citations (5)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US20030027141A1 (en) * 1999-10-08 2003-02-06 Board Of Regents, The University Of Texas System Combinatorial oligonucleotide PCR: a method for rapid, global expression analysis
US20160017418A1 (en) * 2012-11-26 2016-01-21 Clinical Genomics Pty Ltd Method of detecting methylation
US20200048697A1 (en) * 2017-04-19 2020-02-13 Singlera Genomics, Inc. Compositions and methods for detection of genomic variance and DNA methylation status
WO2020192680A1 (en) * 2019-03-25 2020-10-01 The Chinese University Of Hong Kong Determining linear and circular forms of circulating nucleic acids
US20220403471A1 (en) * 2019-08-27 2022-12-22 Exact Sciences Corporation Characterizing methylated dna, rna, and proteins in subjects suspected of having lung neoplasia

Non-Patent Citations (1)

* Cited by examiner, † Cited by third party
Title
MICHELSON ET AL.: "MitoQuicLy: a high-throughput method for quantifying cell -free DNA from human plasma, serum, and saliva", MITOCHONDRION, vol. 71, 10 May 2023 (2023-05-10), pages 26 - 39, XP087355803, Retrieved from the Internet <URL:https://www.sciencedirect.com/science/article/abs/pii/S1567724923000387?via%3Dihub> [retrieved on 20250617], DOI: 10.1016/j.mito.2023.05.001 *

Also Published As

Publication number Publication date
WO2025097008A2 (en) 2025-05-08

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