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WO2004099366A3 - Context sensitive parallel optimization of zinc finger dna binding domains - Google Patents

Context sensitive parallel optimization of zinc finger dna binding domains Download PDF

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Publication number
WO2004099366A3
WO2004099366A3 PCT/US2003/034010 US0334010W WO2004099366A3 WO 2004099366 A3 WO2004099366 A3 WO 2004099366A3 US 0334010 W US0334010 W US 0334010W WO 2004099366 A3 WO2004099366 A3 WO 2004099366A3
Authority
WO
WIPO (PCT)
Prior art keywords
dna binding
zinc finger
binding domains
context sensitive
finger dna
Prior art date
Application number
PCT/US2003/034010
Other languages
French (fr)
Other versions
WO2004099366A2 (en
Inventor
Keith J Joung
Carl Pabo
Original Assignee
Gen Hospital Corp
Massachussetts Inst Of Technlo
Keith J Joung
Carl Pabo
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 Gen Hospital Corp, Massachussetts Inst Of Technlo, Keith J Joung, Carl Pabo filed Critical Gen Hospital Corp
Priority to US10/532,258 priority Critical patent/US20070178454A1/en
Priority to AU2003304086A priority patent/AU2003304086A1/en
Publication of WO2004099366A2 publication Critical patent/WO2004099366A2/en
Publication of WO2004099366A3 publication Critical patent/WO2004099366A3/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
    • C12N15/10—Processes for the isolation, preparation or purification of DNA or RNA
    • C12N15/1034—Isolating an individual clone by screening libraries
    • C—CHEMISTRY; METALLURGY
    • C40—COMBINATORIAL TECHNOLOGY
    • C40B—COMBINATORIAL CHEMISTRY; LIBRARIES, e.g. CHEMICAL LIBRARIES
    • C40B40/00—Libraries per se, e.g. arrays, mixtures
    • C40B40/02—Libraries contained in or displayed by microorganisms, e.g. bacteria or animal cells; Libraries contained in or displayed by vectors, e.g. plasmids; Libraries containing only microorganisms or vectors
    • C—CHEMISTRY; METALLURGY
    • C40—COMBINATORIAL TECHNOLOGY
    • C40B—COMBINATORIAL CHEMISTRY; LIBRARIES, e.g. CHEMICAL LIBRARIES
    • C40B40/00—Libraries per se, e.g. arrays, mixtures
    • C40B40/04—Libraries containing only organic compounds
    • C40B40/06—Libraries containing nucleotides or polynucleotides, or derivatives thereof
    • C40B40/08—Libraries containing RNA or DNA which encodes proteins, e.g. gene libraries
    • 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
    • C12N15/10—Processes for the isolation, preparation or purification of DNA or RNA
    • C12N15/1034—Isolating an individual clone by screening libraries
    • C12N15/1055—Protein x Protein interaction, e.g. two hybrid selection

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  • Life Sciences & Earth Sciences (AREA)
  • Chemical & Material Sciences (AREA)
  • Organic Chemistry (AREA)
  • Health & Medical Sciences (AREA)
  • Genetics & Genomics (AREA)
  • Molecular Biology (AREA)
  • Biochemistry (AREA)
  • Engineering & Computer Science (AREA)
  • General Engineering & Computer Science (AREA)
  • Wood Science & Technology (AREA)
  • General Chemical & Material Sciences (AREA)
  • Microbiology (AREA)
  • Zoology (AREA)
  • Medicinal Chemistry (AREA)
  • Chemical Kinetics & Catalysis (AREA)
  • Biomedical Technology (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • Biotechnology (AREA)
  • General Health & Medical Sciences (AREA)
  • Plant Pathology (AREA)
  • Biophysics (AREA)
  • Physics & Mathematics (AREA)
  • Crystallography & Structural Chemistry (AREA)
  • Peptides Or Proteins (AREA)
  • Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)

Abstract

The present invention relates to methods of identifying multi-finger Zf polypeptides that bind to a sequence of interest. Zf polypeptides identified using the methods described herein can have affinity and specificity for their target sites that is superior to those produced by alternative methods.
PCT/US2003/034010 2002-10-21 2003-10-23 Context sensitive parallel optimization of zinc finger dna binding domains WO2004099366A2 (en)

Priority Applications (2)

Application Number Priority Date Filing Date Title
US10/532,258 US20070178454A1 (en) 2002-10-21 2003-10-23 Context sensitive paralell optimization of zinc finger dna binding domains
AU2003304086A AU2003304086A1 (en) 2002-10-23 2003-10-23 Context sensitive parallel optimization of zinc finger dna binding domains

Applications Claiming Priority (4)

Application Number Priority Date Filing Date Title
US42045802P 2002-10-23 2002-10-23
US60/420,485 2002-10-23
US46688903P 2003-04-30 2003-04-30
US60/466,889 2003-04-30

Publications (2)

Publication Number Publication Date
WO2004099366A2 WO2004099366A2 (en) 2004-11-18
WO2004099366A3 true WO2004099366A3 (en) 2006-07-20

Family

ID=33436673

Family Applications (1)

Application Number Title Priority Date Filing Date
PCT/US2003/034010 WO2004099366A2 (en) 2002-10-21 2003-10-23 Context sensitive parallel optimization of zinc finger dna binding domains

Country Status (2)

Country Link
AU (1) AU2003304086A1 (en)
WO (1) WO2004099366A2 (en)

Families Citing this family (19)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US20140274812A1 (en) 2011-07-15 2014-09-18 The General Hospital Corporation Methods of Transcription Activator Like Effector Assembly
US9890364B2 (en) 2012-05-29 2018-02-13 The General Hospital Corporation TAL-Tet1 fusion proteins and methods of use thereof
EP3789405A1 (en) 2012-10-12 2021-03-10 The General Hospital Corporation Transcription activator-like effector (tale) - lysine-specific demethylase 1 (lsd1) fusion proteins
EP3623463B1 (en) 2013-02-07 2021-10-20 The General Hospital Corporation Tale transcriptional activators
WO2014144288A1 (en) 2013-03-15 2014-09-18 The General Hospital Corporation Using rna-guided foki nucleases (rfns) to increase specificity for rna-guided genome editing
US10760064B2 (en) 2013-03-15 2020-09-01 The General Hospital Corporation RNA-guided targeting of genetic and epigenomic regulatory proteins to specific genomic loci
US10011850B2 (en) 2013-06-21 2018-07-03 The General Hospital Corporation Using RNA-guided FokI Nucleases (RFNs) to increase specificity for RNA-Guided Genome Editing
WO2015070083A1 (en) 2013-11-07 2015-05-14 Editas Medicine,Inc. CRISPR-RELATED METHODS AND COMPOSITIONS WITH GOVERNING gRNAS
KR102598819B1 (en) 2014-06-23 2023-11-03 더 제너럴 하스피탈 코포레이션 Genomewide unbiased identification of dsbs evaluated by sequencing (guide-seq)
US11021718B2 (en) 2014-10-01 2021-06-01 The General Hospital Corporation Methods for increasing efficiency of nuclease-induced homology-directed repair
EP3302525A2 (en) 2015-06-05 2018-04-11 Novartis AG Methods and compositions for diagnosing, treating, and monitoring treatment of shank3 deficiency associated disorders
US9926546B2 (en) 2015-08-28 2018-03-27 The General Hospital Corporation Engineered CRISPR-Cas9 nucleases
US9512446B1 (en) 2015-08-28 2016-12-06 The General Hospital Corporation Engineered CRISPR-Cas9 nucleases
CA3000816A1 (en) 2015-09-11 2017-03-16 The General Hospital Corporation Full interrogation of nuclease dsbs and sequencing (find-seq)
AU2016331185A1 (en) 2015-09-30 2018-04-26 The General Hospital Corporation Comprehensive in vitro reporting of cleavage events by sequencing (CIRCLE-seq)
JP7399710B2 (en) 2016-10-14 2023-12-18 ザ ジェネラル ホスピタル コーポレイション Epigenetically regulated site-specific nucleases
WO2018218206A1 (en) 2017-05-25 2018-11-29 The General Hospital Corporation Bipartite base editor (bbe) architectures and type-ii-c-cas9 zinc finger editing
EP3921417A4 (en) 2019-02-04 2022-11-09 The General Hospital Corporation Adenine dna base editor variants with reduced off-target rna editing
DK3812472T3 (en) 2019-10-21 2023-02-20 Univ Freiburg Albert Ludwigs TRULY UNBIASED IN VITRO ASSAYS FOR PROFILING THE OFF-TARGET ACTIVITY OF ONE OR MORE TARGET-SPECIFIC PROGRAMMABLE NUCLEASES IN CELLS (ABNOBA-SEQ)

Non-Patent Citations (4)

* Cited by examiner, † Cited by third party
Title
CHANDRASEGARAN S.: "Chimeric Restriction Enzymes: What is Next?", BIOLOGICAL CHEMISTRY, vol. 380, 1999, pages 841 - 848, XP008019125 *
CHOCO Y. ET AL.: "In vivo repression by a site-specific DNA-binding protein designed against an oncogenic sequence", NATURE, vol. 372, 15 December 1994 (1994-12-15), pages 642 - 645, XP003001072 *
HANES J. ET AL.: "Comparison of Escherichia coli and rabbit reticulocyte ribosome display systems", FEBS., vol. 450, 1999, pages 105 - 110, XP002178365 *
WOLFE S. A. ET AL.: "Combining structure-based design with phage display to create new Cy2His2 zinc finger dimers", STRUCTURE, vol. 8, 21 June 2000 (2000-06-21), pages 739 - 750, XP008070579 *

Also Published As

Publication number Publication date
AU2003304086A8 (en) 2004-11-26
AU2003304086A1 (en) 2004-11-26
WO2004099366A2 (en) 2004-11-18

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