WO2004033718A3 - Trap-tagging: a novel method for the identification and purification of rna-protein complexes - Google Patents

Trap-tagging: a novel method for the identification and purification of rna-protein complexes Download PDF

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Publication number
WO2004033718A3
WO2004033718A3 PCT/CA2003/001555 CA0301555W WO2004033718A3 WO 2004033718 A3 WO2004033718 A3 WO 2004033718A3 CA 0301555 W CA0301555 W CA 0301555W WO 2004033718 A3 WO2004033718 A3 WO 2004033718A3
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WO
WIPO (PCT)
Prior art keywords
rna
protein complexes
trap
purification
identification
Prior art date
Application number
PCT/CA2003/001555
Other languages
French (fr)
Other versions
WO2004033718A2 (en
Inventor
Henry M Krause
Andrew J Simmonds
Original Assignee
Henry M Krause
Andrew J Simmonds
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 Henry M Krause, Andrew J Simmonds filed Critical Henry M Krause
Priority to AU2003273700A priority Critical patent/AU2003273700A1/en
Priority to US10/531,095 priority patent/US20060105341A1/en
Priority to DE10393473T priority patent/DE10393473T5/en
Priority to GB0507065A priority patent/GB2409274B/en
Publication of WO2004033718A2 publication Critical patent/WO2004033718A2/en
Publication of WO2004033718A3 publication Critical patent/WO2004033718A3/en

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    • 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
    • C12N15/115—Aptamers, i.e. nucleic acids binding a target molecule specifically and with high affinity without hybridising therewith ; Nucleic acids binding to non-nucleic acids, e.g. aptamers
    • 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
    • C12Q1/6811—Selection methods for production or design of target specific oligonucleotides or binding molecules
    • 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
    • C12Q1/6897—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving nucleic acids involving reporter genes operably linked to promoters
    • 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
    • G01N33/5005—Chemical analysis of biological material, e.g. blood, urine; Testing involving biospecific ligand binding methods; Immunological testing involving human or animal cells
    • 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
    • G01N33/68—Chemical analysis of biological material, e.g. blood, urine; Testing involving biospecific ligand binding methods; Immunological testing involving proteins, peptides or amino acids
    • G01N33/6875—Nucleoproteins
    • C—CHEMISTRY; METALLURGY
    • C07—ORGANIC CHEMISTRY
    • C07K—PEPTIDES
    • C07K2319/00—Fusion polypeptide

Abstract

Conventional methods for the isolation and identification of specific RNA-protein complexes are plagued by a number of problems not encountered in genomics or proteomics. Here we describe a two step affinity purification method used to isolate RNA-protein complexes. The TRAP (Tandem RNA Affinity Purification) tag is a dual RNA tagging system that facilitates gentle purification of RNA molecules along with the proteins, RNAs and other small molecules specifically associated with them.
PCT/CA2003/001555 2002-10-11 2003-10-10 Trap-tagging: a novel method for the identification and purification of rna-protein complexes WO2004033718A2 (en)

Priority Applications (4)

Application Number Priority Date Filing Date Title
AU2003273700A AU2003273700A1 (en) 2002-10-11 2003-10-10 Trap-tagging: a novel method for the identification and purification of rna-protein complexes
US10/531,095 US20060105341A1 (en) 2002-10-11 2003-10-10 Trap-tagging: a novel method for the identification and purification of rna-protein complexes
DE10393473T DE10393473T5 (en) 2002-10-11 2003-10-10 Trap tagging: a novel method for the identification and purification of RNA-protein complexes
GB0507065A GB2409274B (en) 2002-10-11 2003-10-10 Trap-tagging: a novel method for the identification and purification of RNA-protein complexes

Applications Claiming Priority (2)

Application Number Priority Date Filing Date Title
CA002407825A CA2407825A1 (en) 2002-10-11 2002-10-11 Trap-tagging: a novel method for the identification and purification of rna-protein complexes
CA2,407,825 2002-10-11

Publications (2)

Publication Number Publication Date
WO2004033718A2 WO2004033718A2 (en) 2004-04-22
WO2004033718A3 true WO2004033718A3 (en) 2004-07-22

Family

ID=32075106

Family Applications (1)

Application Number Title Priority Date Filing Date
PCT/CA2003/001555 WO2004033718A2 (en) 2002-10-11 2003-10-10 Trap-tagging: a novel method for the identification and purification of rna-protein complexes

Country Status (6)

Country Link
US (1) US20060105341A1 (en)
AU (1) AU2003273700A1 (en)
CA (1) CA2407825A1 (en)
DE (1) DE10393473T5 (en)
GB (1) GB2409274B (en)
WO (1) WO2004033718A2 (en)

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US20070166741A1 (en) 1998-12-14 2007-07-19 Somalogic, Incorporated Multiplexed analyses of test samples
US6242246B1 (en) * 1997-12-15 2001-06-05 Somalogic, Inc. Nucleic acid ligand diagnostic Biochip
AU2003217379A1 (en) * 2002-02-15 2003-09-09 Somalogic, Inc. Methods and reagents for detecting target binding by nucleic acid ligands
US8975026B2 (en) 2007-01-16 2015-03-10 Somalogic, Inc. Method for generating aptamers with improved off-rates
US7855054B2 (en) * 2007-01-16 2010-12-21 Somalogic, Inc. Multiplexed analyses of test samples
US20110136099A1 (en) * 2007-01-16 2011-06-09 Somalogic, Inc. Multiplexed Analyses of Test Samples
US7964356B2 (en) * 2007-01-16 2011-06-21 Somalogic, Inc. Method for generating aptamers with improved off-rates
US7947447B2 (en) 2007-01-16 2011-05-24 Somalogic, Inc. Method for generating aptamers with improved off-rates
PT2172566E (en) * 2007-07-17 2015-06-23 Somalogic Inc Method for generating aptamers with improved off-rates
US8906700B2 (en) 2007-11-06 2014-12-09 Ambergen, Inc. Methods and compositions for phototransfer
US20090162845A1 (en) 2007-12-20 2009-06-25 Elazar Rabbani Affinity tag nucleic acid and protein compositions, and processes for using same
JP2011515685A (en) * 2008-03-26 2011-05-19 メルク パテント ゲゼルシャフト ミット ベシュレンクテル ハフツング Method for long-term storage of substrate-bound beads
US8703416B2 (en) 2008-07-17 2014-04-22 Somalogic, Inc. Method for purification and identification of sperm cells
WO2011109642A1 (en) 2010-03-03 2011-09-09 Somalogic, Inc. Aptamers to 4-1bb and their use in treating diseases and disorders
NZ602618A (en) 2010-04-12 2013-12-20 Somalogic Inc Aptamers to beta-ngf and their use in treating beta-ngf mediated diseases and disorders
US9267371B2 (en) * 2013-08-01 2016-02-23 Trace Logic, Inc Oil and gas fracture liquid tracing with oligonucleotides
JP2015055568A (en) * 2013-09-12 2015-03-23 株式会社日立ハイテクノロジーズ Biomolecule analysis method and biomolecule analyzer
US20230093390A1 (en) * 2019-12-03 2023-03-23 Sung Chun Kim Method for obtaining profile of target molecule population of sample

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WO2002061079A2 (en) * 2001-01-29 2002-08-08 Isis Innovation Limited Biligands
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WO2003087138A2 (en) * 2002-04-12 2003-10-23 Rigel Pharmaceuticals, Inc. Methods for identifying polypeptide factors interacting with rna

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AU649228B2 (en) * 1989-07-28 1994-05-19 United States of America, as represented by the Secretary, U.S. Department of Commerce, The Efficient directional genetic cloning system
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WO2000032619A1 (en) * 1998-11-30 2000-06-08 Ribogene, Inc. Methods and compositions for identification of inhibitors of ribosome assembly
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Also Published As

Publication number Publication date
AU2003273700A1 (en) 2004-05-04
US20060105341A1 (en) 2006-05-18
WO2004033718A2 (en) 2004-04-22
DE10393473T5 (en) 2005-09-08
GB0507065D0 (en) 2005-05-11
AU2003273700A8 (en) 2004-05-04
CA2407825A1 (en) 2004-04-11
GB2409274B (en) 2007-05-02
GB2409274A (en) 2005-06-22

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