WO2006102540A3 - Elucidation of high affinity, high specificity oligonucleotides and derivatized oligonucleotide sequences for target recognition - Google Patents

Elucidation of high affinity, high specificity oligonucleotides and derivatized oligonucleotide sequences for target recognition Download PDF

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Publication number
WO2006102540A3
WO2006102540A3 PCT/US2006/010645 US2006010645W WO2006102540A3 WO 2006102540 A3 WO2006102540 A3 WO 2006102540A3 US 2006010645 W US2006010645 W US 2006010645W WO 2006102540 A3 WO2006102540 A3 WO 2006102540A3
Authority
WO
WIPO (PCT)
Prior art keywords
oligonucleotide sequences
elucidation
target recognition
high affinity
derivatized oligonucleotide
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.)
Ceased
Application number
PCT/US2006/010645
Other languages
French (fr)
Other versions
WO2006102540A2 (en
Inventor
Bruce S Hudson
Philip N Borer
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.)
Syracuse University
Original Assignee
Syracuse 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 Syracuse University filed Critical Syracuse University
Priority to AU2006226844A priority Critical patent/AU2006226844A1/en
Priority to CA002602602A priority patent/CA2602602A1/en
Priority to EP06748609A priority patent/EP1871783A2/en
Publication of WO2006102540A2 publication Critical patent/WO2006102540A2/en
Publication of WO2006102540A3 publication Critical patent/WO2006102540A3/en
Anticipated expiration legal-status Critical
Ceased legal-status Critical Current

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Classifications

    • G—PHYSICS
    • G01—MEASURING; TESTING
    • G01N—INVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
    • G01N33/00—Investigating or analysing materials by specific methods not covered by groups G01N1/00 - G01N31/00
    • G01N33/48—Biological material, e.g. blood, urine; Haemocytometers
    • G01N33/50—Chemical analysis of biological material, e.g. blood, urine; Testing involving biospecific ligand binding methods; Immunological testing
    • G01N33/53—Immunoassay; Biospecific binding assay; Materials therefor
    • G01N33/5308—Immunoassay; Biospecific binding assay; Materials therefor for analytes not provided for elsewhere, e.g. nucleic acids, uric acid, worms, mites
    • 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
    • G—PHYSICS
    • G01—MEASURING; TESTING
    • G01N—INVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
    • G01N2333/00—Assays involving biological materials from specific organisms or of a specific nature
    • G01N2333/435—Assays involving biological materials from specific organisms or of a specific nature from animals; from humans
    • G01N2333/44—Assays involving biological materials from specific organisms or of a specific nature from animals; from humans from protozoa

Landscapes

  • Life Sciences & Earth Sciences (AREA)
  • Health & Medical Sciences (AREA)
  • Chemical & Material Sciences (AREA)
  • Engineering & Computer Science (AREA)
  • Immunology (AREA)
  • Molecular Biology (AREA)
  • Organic Chemistry (AREA)
  • Wood Science & Technology (AREA)
  • Proteomics, Peptides & Aminoacids (AREA)
  • Hematology (AREA)
  • Microbiology (AREA)
  • Urology & Nephrology (AREA)
  • Zoology (AREA)
  • Biotechnology (AREA)
  • Biomedical Technology (AREA)
  • Physics & Mathematics (AREA)
  • Analytical Chemistry (AREA)
  • Biochemistry (AREA)
  • General Health & Medical Sciences (AREA)
  • Medicinal Chemistry (AREA)
  • Pathology (AREA)
  • Biophysics (AREA)
  • General Physics & Mathematics (AREA)
  • Food Science & Technology (AREA)
  • Cell Biology (AREA)
  • Tropical Medicine & Parasitology (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • General Engineering & Computer Science (AREA)
  • Genetics & Genomics (AREA)
  • Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)

Abstract

A method is disclosed to obtain oligonucleotide sequences with high affinity to target molecules. By design, the oligonucleotides have a defined primary and secondary structure. The affinity for binding to target species is classified or quantified by assay measurements using physical measurements rather than being based primarily on separations. Targets include but are not limited to proteins, polymers, biological membranes including cells and organelles and small molecules.
PCT/US2006/010645 2005-03-24 2006-03-23 Elucidation of high affinity, high specificity oligonucleotides and derivatized oligonucleotide sequences for target recognition Ceased WO2006102540A2 (en)

Priority Applications (3)

Application Number Priority Date Filing Date Title
AU2006226844A AU2006226844A1 (en) 2005-03-24 2006-03-23 Elucidation of high affinity, high specificity oligonucleotides and derivatized oligonucleotide sequences for target recognition
CA002602602A CA2602602A1 (en) 2005-03-24 2006-03-23 Elucidation of high affinity, high specificity oligonucleotides and derivatized oligonucleotide sequences for target recognition
EP06748609A EP1871783A2 (en) 2005-03-24 2006-03-23 A method for the discovery of high-affinity, high specificity oligonucleotide and derivatized oligonucleotide sequences for target recognition

Applications Claiming Priority (2)

Application Number Priority Date Filing Date Title
US66445705P 2005-03-24 2005-03-24
US60/664,457 2005-03-24

Publications (2)

Publication Number Publication Date
WO2006102540A2 WO2006102540A2 (en) 2006-09-28
WO2006102540A3 true WO2006102540A3 (en) 2007-01-04

Family

ID=37024646

Family Applications (1)

Application Number Title Priority Date Filing Date
PCT/US2006/010645 Ceased WO2006102540A2 (en) 2005-03-24 2006-03-23 Elucidation of high affinity, high specificity oligonucleotides and derivatized oligonucleotide sequences for target recognition

Country Status (5)

Country Link
US (1) US8921278B2 (en)
EP (1) EP1871783A2 (en)
AU (1) AU2006226844A1 (en)
CA (1) CA2602602A1 (en)
WO (1) WO2006102540A2 (en)

Families Citing this family (4)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
CN102066562A (en) * 2008-03-12 2011-05-18 雪城大学 Direct selection of structurally defined aptamers
US8484010B2 (en) 2010-11-17 2013-07-09 Technology Innovations, Llc Method for designing an aptamer
EP4339288A3 (en) 2016-03-18 2024-06-05 Caris Science, Inc. Oligonucleotide probes and uses thereof
CA3025486A1 (en) 2016-05-25 2017-11-30 Caris Science, Inc. Oligonucleotide probes and uses thereof

Citations (4)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US5496938A (en) * 1990-06-11 1996-03-05 Nexstar Pharmaceuticals, Inc. Nucleic acid ligands to HIV-RT and HIV-1 rev
US5786462A (en) * 1990-06-11 1998-07-28 Nexstar Pharmaceuticals, Inc. High affinity ssDNA ligands of HIV-1 reverse transcriptase
US6569630B1 (en) * 1999-07-02 2003-05-27 Conceptual Mindworks, Inc. Methods and compositions for aptamers against anthrax
US20030165837A1 (en) * 2000-06-14 2003-09-04 The Scripps Research Institute Method for screening DNA binding

Family Cites Families (4)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
EP0786469B1 (en) 1990-06-11 2006-03-01 Gilead Sciences, Inc. Methods of use of nucleic acid ligands
GB9016973D0 (en) * 1990-08-02 1990-09-19 Medical Res Council Viral growth inhibition
EP1049803A4 (en) 1997-12-15 2002-08-21 Nexstar Pharmaceuticals Inc Homogeneous detection of a target through nucleic acid ligand-ligand beacon interaction
AU2001287273A1 (en) * 2000-03-24 2001-10-08 Maxygen, Inc. Methods for modulating cellular and organismal phenotypes

Patent Citations (4)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US5496938A (en) * 1990-06-11 1996-03-05 Nexstar Pharmaceuticals, Inc. Nucleic acid ligands to HIV-RT and HIV-1 rev
US5786462A (en) * 1990-06-11 1998-07-28 Nexstar Pharmaceuticals, Inc. High affinity ssDNA ligands of HIV-1 reverse transcriptase
US6569630B1 (en) * 1999-07-02 2003-05-27 Conceptual Mindworks, Inc. Methods and compositions for aptamers against anthrax
US20030165837A1 (en) * 2000-06-14 2003-09-04 The Scripps Research Institute Method for screening DNA binding

Non-Patent Citations (1)

* Cited by examiner, † Cited by third party
Title
BOIZIAU C. ET AL.: "DNA aptamers selected against the HIV-1 trans-activation response RNA element from RNA-DNA kissing complexes", J. BIOL. CHEM., vol. 274, pages 12730 - 12737, XP003005118 *

Also Published As

Publication number Publication date
CA2602602A1 (en) 2006-09-28
US20060257900A1 (en) 2006-11-16
AU2006226844A1 (en) 2006-09-28
US8921278B2 (en) 2014-12-30
WO2006102540A2 (en) 2006-09-28
EP1871783A2 (en) 2008-01-02

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