DK3066219T3 - Fremgangsmåder til påvisning af oligonukleotider - Google Patents

Fremgangsmåder til påvisning af oligonukleotider Download PDF

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Publication number
DK3066219T3
DK3066219T3 DK14860026.5T DK14860026T DK3066219T3 DK 3066219 T3 DK3066219 T3 DK 3066219T3 DK 14860026 T DK14860026 T DK 14860026T DK 3066219 T3 DK3066219 T3 DK 3066219T3
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Denmark
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certain embodiments
oligonucleotide
modified
sugar
nucleosides
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DK14860026.5T
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English (en)
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Sarah Greenlee
Zhengrong Yu
Thazha P Prakash
John E Matson
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Ionis Pharmaceuticals Inc
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Publication of DK3066219T3 publication Critical patent/DK3066219T3/da

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    • 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
    • C12Q1/6834—Enzymatic or biochemical coupling of nucleic acids to a solid phase
    • 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
    • C12Q1/6834—Enzymatic or biochemical coupling of nucleic acids to a solid phase
    • C12Q1/6837—Enzymatic or biochemical coupling of nucleic acids to a solid phase using probe arrays or probe chips
    • 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
    • C12Q1/6813—Hybridisation assays
    • C12Q1/6816—Hybridisation assays characterised by the detection means
    • C12Q1/6825—Nucleic acid detection involving sensors

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

Claims (17)

1. Fremgangsmåde til påvisning eller kvantificering af et måloligonukleotid i en legemsvæske eller -ekstrakt hvor måloligonukleotidet er 14 til 40 nukleosider i længde og omfatter mindst ét modificeret nukleosid omfattende en modificeret sukkergruppe der giver øget bindingsaffinitet til en målnukleinsyre, omfattende: at danne en testprøve ved at bringe legemsvæsken eller -ekstrakt i kontakt med en indfangningsprobe, hvor: indfangningsproben er komplementær med en første del af måloligonukleotidet; og indfangningsproben omfatter en bindingsgruppe, hvor bindingsgruppen er kovalent bundet til indfangningsproben; testprøven bringes i kontakt med en fast bærer, hvor den faste bærer omfatter en bindingspartner af bindingsgruppen af indfangningsproben; testprøven bringes i kontakt med en påvisningsprobe, hvor: påvisningsproben er komplementær med en anden del af måloligonukleotidet, hvor den første del og den anden del af måloligonukleotidet ikke overlapper; og påvisningsproben omfatter en elektrochemiluminescerende gruppe, hvor den elektrochemiluminescerende gruppe er kovalent bundet til påvisningsproben; vaskning af testprøven for at fjerne ubundet probe; detektere tilstedeværelsen eller mængde af den elektrochemiluminescerende gruppe i testprøven; og derved identificere eller kvantificere måloligonukleotidet i legemsvæsken eller -ekstrakt.
2. Fremgangsmåden ifølge krav 1, hvor det mindst ene modificerede nukleosid omfattende en modificeret sukkergruppe der giver øget bindingsaffinitet til en målnukleinsyre omfatter en 2'-O-methoxyethylmodifikation.
3. Fremgangsmåden ifølge krav 1 eller 2, hvor det mindst ene modificerede nukleosid omfattende en modificeret sukkergruppe der giver øget bindingsaffinitet til en målnukleinsyre omfatter et bicyklisk nukleosid.
4. Fremgangsmåden ifølge et hvilket som helst af kravene 1-3, hvor indfangningsproben omfatter mindst én sukkermodifikation.
5. Fremgangsmåden ifølge et hvilket som helst af kravene 1-4, hvor påvisningsproben omfatter mindst én sukkermodifikation.
6. Fremgangsmåden ifølge et hvilket som helst af kravene 1-5, hvor indfangningsproben omfatter mindst én 2'-O-methoxyethyl sukkermodifikation.
7. Fremgangsmåden ifølge et hvilket som helst af kravene 1-6, hvor indfangningsproben omfatter mindst én cEt-sukkermodifikation.
8. Fremgangsmåden ifølge et hvilket som helst af kravene 1-7, hvor indfangningsproben omfatter mindst én 2'-F-sukkermodifikation.
9. Fremgangsmåden ifølge et hvilket som helst af kravene 1-8, hvor påvisningsproben omfatter mindst én 2'-O-methoxyethyl-sukkermodifikation.
10. Fremgangsmåden ifølge et hvilket som helst af kravene 1-9, hvor påvisningsproben omfatter mindst én cEt-sukkermodifikation.
11. Fremgangsmåden ifølge et hvilket som helst af kravene 1-10, hvor påvisningsproben omfatter mindst én 2'-F sukkermodifikation.
12. Fremgangsmåden ifølge et hvilket som helst af kravene 1-11, hvor legemsvæsken er cerebrospinalvæske.
13. Fremgangsmåden ifølge et hvilket som helst af kravene 1-12, hvor den elektrochemiluminescerende gruppe er tris(2,2-bipyridin) Ruthenium (II) tag.
14. Fremgangsmåden ifølge et hvilket som helst af kravene 1-13, hvor fremgangsmåden har en sensitivitet på mindre end 1 ng/ml af måloligonukleotidet.
15. Fremgangsmåden ifølge et hvilket som helst af kravene 1-14, yderligere omfattende at bringe testprøven i kontakt med en protease, eventuelt hvor proteasen er Proteinase K.
16. Fremgangsmåden ifølge et hvilket som helst af kravene 1-15, hvor indfangnings- og påvisningsproberne hver er 7-10 nukleotider i længde.
17. Fremgangsmåden ifølge et hvilket som helst af kravene 1-16, hvor måloligonukleotidet er 18-40, 20-40, 10-30, 14-30, 18-30, 20-30, 10-22, 14-22, 18-22 eller 20-22 nukleosider i længde.
DK14860026.5T 2013-11-08 2014-11-10 Fremgangsmåder til påvisning af oligonukleotider DK3066219T3 (da)

Applications Claiming Priority (2)

Application Number Priority Date Filing Date Title
US201361902112P 2013-11-08 2013-11-08
PCT/US2014/064874 WO2015070173A1 (en) 2013-11-08 2014-11-10 Compounds and methods for detecting oligonucleotides

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DK3066219T3 true DK3066219T3 (da) 2019-03-11

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US (1) US10752940B2 (da)
EP (1) EP3066219B1 (da)
DK (1) DK3066219T3 (da)
WO (1) WO2015070173A1 (da)

Families Citing this family (8)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
CA3011894A1 (en) 2016-01-31 2017-08-03 University Of Massachusetts Branched oligonucleotides
WO2018031933A2 (en) 2016-08-12 2018-02-15 University Of Massachusetts Conjugated oligonucleotides
EP4035659A1 (en) 2016-11-29 2022-08-03 PureTech LYT, Inc. Exosomes for delivery of therapeutic agents
SG11202101288TA (en) 2018-08-10 2021-03-30 Univ Massachusetts Modified oligonucleotides targeting snps
WO2021087164A1 (en) * 2019-10-30 2021-05-06 Shire Human Genetic Therapies, Inc. Methods for detecting oligonucleotides
WO2021146548A1 (en) * 2020-01-17 2021-07-22 Anastasia Khvorova Universal dynamic pharmacokinetic-modifying anchors
WO2022271786A1 (en) 2021-06-23 2022-12-29 University Of Massachusetts Optimized anti-flt1 oligonucleotide compounds for treatment of preeclampsia and other angiogenic disorders
WO2023129884A1 (en) * 2021-12-30 2023-07-06 Meso Scale Technologies, Llc. Methods for electrochemiluminescence detection

Family Cites Families (51)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US3687808A (en) 1969-08-14 1972-08-29 Univ Leland Stanford Junior Synthetic polynucleotides
US5367066A (en) 1984-10-16 1994-11-22 Chiron Corporation Oligonucleotides with selectably cleavable and/or abasic sites
FR2575751B1 (fr) 1985-01-08 1987-04-03 Pasteur Institut Nouveaux nucleosides de derives de l'adenosine, leur preparation et leurs applications biologiques
WO1988010264A1 (en) 1987-06-24 1988-12-29 Howard Florey Institute Of Experimental Physiology Nucleoside derivatives
US4988617A (en) * 1988-03-25 1991-01-29 California Institute Of Technology Method of detecting a nucleotide change in nucleic acids
US5175273A (en) 1988-07-01 1992-12-29 Genentech, Inc. Nucleic acid intercalating agents
US5134066A (en) 1989-08-29 1992-07-28 Monsanto Company Improved probes using nucleosides containing 3-dezauracil analogs
US5130302A (en) 1989-12-20 1992-07-14 Boron Bilogicals, Inc. Boronated nucleoside, nucleotide and oligonucleotide compounds, compositions and methods for using same
US5587470A (en) 1990-01-11 1996-12-24 Isis Pharmaceuticals, Inc. 3-deazapurines
US5681941A (en) 1990-01-11 1997-10-28 Isis Pharmaceuticals, Inc. Substituted purines and oligonucleotide cross-linking
US5459255A (en) 1990-01-11 1995-10-17 Isis Pharmaceuticals, Inc. N-2 substituted purines
WO1992002258A1 (en) 1990-07-27 1992-02-20 Isis Pharmaceuticals, Inc. Nuclease resistant, pyrimidine modified oligonucleotides that detect and modulate gene expression
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
US6582908B2 (en) * 1990-12-06 2003-06-24 Affymetrix, Inc. Oligonucleotides
US5594121A (en) 1991-11-07 1997-01-14 Gilead Sciences, Inc. Enhanced triple-helix and double-helix formation with oligomers containing modified purines
DE69232816T2 (de) 1991-11-26 2003-06-18 Isis Pharmaceuticals Inc Gesteigerte bildung von triple- und doppelhelices aus oligomeren mit modifizierten pyrimidinen
US5484908A (en) 1991-11-26 1996-01-16 Gilead Sciences, Inc. Oligonucleotides containing 5-propynyl pyrimidines
TW393513B (en) 1991-11-26 2000-06-11 Isis Pharmaceuticals Inc Enhanced triple-helix and double-helix formation with oligomers containing modified pyrimidines
ZA929351B (en) * 1991-12-11 1993-06-04 Igen Inc Electrochemiluminescent label for DNA assays.
AU6031094A (en) * 1993-01-15 1994-08-15 Public Health Research Institute Of The City Of New York, Inc., The Sensitive nucleic acid sandwich hybridization assays and kits
US5484909A (en) * 1993-09-10 1996-01-16 Amoco Corporation Nucleic acid probes for the detection of bacteria of the genera Pediococcus and Lactobacillus and methods for the detection of the bacterial agents causing spoilage of beer
US5502177A (en) 1993-09-17 1996-03-26 Gilead Sciences, Inc. Pyrimidine derivatives for labeled binding partners
CA2172248C (en) * 1993-09-22 2003-12-30 John Kenten Self-sustained sequence replication electrochemiluminescent nucleic acid assay
US6890712B1 (en) * 1993-09-22 2005-05-10 Bioveris Corporation Cycling DNA/RNA amplification electrochemiluminescent probe assay
US5457187A (en) 1993-12-08 1995-10-10 Board Of Regents University Of Nebraska Oligonucleotides containing 5-fluorouracil
US5596091A (en) 1994-03-18 1997-01-21 The Regents Of The University Of California Antisense oligonucleotides comprising 5-aminoalkyl pyrimidine nucleotides
US5525711A (en) 1994-05-18 1996-06-11 The United States Of America As Represented By The Secretary Of The Department Of Health And Human Services Pteridine nucleotide analogs as fluorescent DNA probes
US5679519A (en) 1995-05-09 1997-10-21 Oprandy; John J. Multi-label complex for enhanced sensitivity in electrochemiluminescence assay
AU730154B2 (en) * 1995-10-27 2001-03-01 Elliot R. Ramberg Methods and compositions for detection of specific nucleotide sequences
AU726821B2 (en) * 1996-07-16 2000-11-23 Gen-Probe Incorporated Methods for detecting and amplifying nucleic acid sequences using modified oligonucleotides having increased target specific Tm
EP0975807B1 (en) * 1997-05-02 2006-09-27 Gen-Probe Incorporated Two-step hybridization and capture of a polynucleotide
US6423493B1 (en) * 1998-10-26 2002-07-23 Board Of Regents The University Of Texas System Combinatorial selection of oligonucleotide aptamers
US6410231B1 (en) * 1999-02-26 2002-06-25 Incyte Genomics, Inc. SNP detection
US20020137060A1 (en) * 2000-08-09 2002-09-26 Brown-Augsburger Patricia Lea Combined hybridization-detection assays for determining nucleic acid concentrations in biological fluids
DK1337547T3 (da) 2000-11-03 2014-06-10 Isis Pharmaceuticals Inc Nuklease-baseret fremgangsmåde til detektion og kvantificering af oligonukleotider
US7345155B2 (en) * 2001-11-02 2008-03-18 Gen-Probe Incorporated Probes, compositions and kits for determining the presence of Mycoplasma genitalium in a test sample
DE10201463B4 (de) * 2002-01-16 2005-07-21 Clondiag Chip Technologies Gmbh Reaktionsgefäß zur Durchführung von Array-Verfahren
US20040086892A1 (en) * 2002-11-06 2004-05-06 Crothers Donald M. Universal tag assay
WO2005084412A2 (en) * 2004-03-05 2005-09-15 Archemix Corp. Controlled modulation of the pharmacokinetics and biodistribution of aptamer therapeutics
US20050287558A1 (en) * 2004-05-05 2005-12-29 Crooke Rosanne M SNPs of apolipoprotein B and modulation of their expression
JP2008507284A (ja) * 2004-07-23 2008-03-13 （オーエスアイ）アイテツク・インコーポレーテツド デュアルハイブリダイゼーションによるオリゴヌクレオチドの検出
US7498137B2 (en) * 2005-06-06 2009-03-03 Gen-Probe Incorporated Compositions and methods for determining the presence of Chlamydophila pneumoniae in a test sample
JP5342881B2 (ja) 2006-01-27 2013-11-13 アイシス ファーマシューティカルズ， インコーポレーテッド ６−修飾された二環式核酸類似体
EP2125852B1 (en) 2007-02-15 2016-04-06 Ionis Pharmaceuticals, Inc. 5'-substituted-2'-f modified nucleosides and oligomeric compounds prepared therefrom
US20080241831A1 (en) * 2007-03-28 2008-10-02 Jian-Bing Fan Methods for detecting small RNA species
ES2641290T3 (es) * 2007-11-20 2017-11-08 Ionis Pharmaceuticals, Inc Modulación de la expresión de CD40
CN101892291A (zh) * 2009-05-08 2010-11-24 中国科学院苏州纳米技术与纳米仿生研究所 一种用于生物分子多重靶标检测的通用标签、探针及检测方法
AU2011207406B2 (en) * 2010-01-22 2015-01-15 Gen-Probe Incorporated Probes for detecting the presence of Trichomonas vaginalis in a sample
US20110312825A1 (en) * 2010-06-17 2011-12-22 Geneasys Pty Ltd Loc device for electrochemiluminescent detection with electrode pairs having complementary and mutually interdigitated finger formations
US20120322064A1 (en) * 2011-05-23 2012-12-20 Board Of Trustees Of Michigan State University Hybridization probes and methods of their use
EP2971164B1 (en) * 2013-03-15 2023-07-26 Veracyte, Inc. Methods and compositions for classification of samples

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EP3066219A4 (en) 2017-06-14
WO2015070173A1 (en) 2015-05-14
US20160281148A1 (en) 2016-09-29
EP3066219B1 (en) 2018-12-26
US10752940B2 (en) 2020-08-25
EP3066219A1 (en) 2016-09-14

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