EP2021499A4 - Functional arrays for high throughput characterization of gene expression regulatory elements - Google Patents

Functional arrays for high throughput characterization of gene expression regulatory elements

Info

Publication number
EP2021499A4
EP2021499A4 EP06849046A EP06849046A EP2021499A4 EP 2021499 A4 EP2021499 A4 EP 2021499A4 EP 06849046 A EP06849046 A EP 06849046A EP 06849046 A EP06849046 A EP 06849046A EP 2021499 A4 EP2021499 A4 EP 2021499A4
Authority
EP
European Patent Office
Prior art keywords
gene expression
high throughput
regulatory elements
expression regulatory
throughput characterization
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
EP06849046A
Other languages
German (de)
French (fr)
Other versions
EP2021499A2 (en
Inventor
Nathan D Trinklein
Shelley F Aldred
Sara J Cooper
Richard M Myers
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.)
Leland Stanford Junior University
Original Assignee
Leland Stanford Junior 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
Priority claimed from US11/636,385 external-priority patent/US20070161031A1/en
Application filed by Leland Stanford Junior University filed Critical Leland Stanford Junior University
Publication of EP2021499A2 publication Critical patent/EP2021499A2/en
Publication of EP2021499A4 publication Critical patent/EP2021499A4/en
Ceased legal-status Critical Current

Links

Classifications

    • 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
    • C12N15/1086—Preparation or screening of expression libraries, e.g. reporter assays
    • 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

Landscapes

  • Life Sciences & Earth Sciences (AREA)
  • Chemical & Material Sciences (AREA)
  • Health & Medical Sciences (AREA)
  • Organic Chemistry (AREA)
  • Genetics & Genomics (AREA)
  • Engineering & Computer Science (AREA)
  • Zoology (AREA)
  • Wood Science & Technology (AREA)
  • General Engineering & Computer Science (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • Biotechnology (AREA)
  • Biophysics (AREA)
  • Physics & Mathematics (AREA)
  • Microbiology (AREA)
  • Biomedical Technology (AREA)
  • Proteomics, Peptides & Aminoacids (AREA)
  • Biochemistry (AREA)
  • General Health & Medical Sciences (AREA)
  • Molecular Biology (AREA)
  • Analytical Chemistry (AREA)
  • Bioinformatics & Computational Biology (AREA)
  • Crystallography & Structural Chemistry (AREA)
  • Immunology (AREA)
  • Plant Pathology (AREA)
  • Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)
  • Micro-Organisms Or Cultivation Processes Thereof (AREA)
  • Apparatus Associated With Microorganisms And Enzymes (AREA)
EP06849046A 2005-12-16 2006-12-08 Functional arrays for high throughput characterization of gene expression regulatory elements Ceased EP2021499A4 (en)

Applications Claiming Priority (4)

Application Number Priority Date Filing Date Title
US75092905P 2005-12-16 2005-12-16
US76205606P 2006-01-24 2006-01-24
US11/636,385 US20070161031A1 (en) 2005-12-16 2006-12-07 Functional arrays for high throughput characterization of gene expression regulatory elements
PCT/US2006/046920 WO2007078599A2 (en) 2005-12-16 2006-12-08 Functional arrays for high throughput characterization of gene expression regulatory elements

Publications (2)

Publication Number Publication Date
EP2021499A2 EP2021499A2 (en) 2009-02-11
EP2021499A4 true EP2021499A4 (en) 2010-02-17

Family

ID=38228711

Family Applications (1)

Application Number Title Priority Date Filing Date
EP06849046A Ceased EP2021499A4 (en) 2005-12-16 2006-12-08 Functional arrays for high throughput characterization of gene expression regulatory elements

Country Status (3)

Country Link
EP (1) EP2021499A4 (en)
JP (1) JP2009519710A (en)
WO (1) WO2007078599A2 (en)

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EP2432881B1 (en) 2009-05-18 2017-11-15 CuRNA, Inc. Treatment of reprogramming factor related diseases by inhibition of natural antisense transcript to a reprogramming factor
DK2454372T3 (en) 2009-07-15 2019-01-28 Zhenglun Zhu HANDLING OF THE TREATMENT OF INFLAMMATORY OR AUTO-IMMUNE DISEASES USING HOM-1 EXPRESSION
KR20190060881A (en) 2010-04-23 2019-06-03 유니버시티 오브 플로리다 리서치 파운데이션, 인크. Raav-guanylate cyclase compositions and methods for treating leber's congenital amaurosis-1 (lca1)
WO2011146411A1 (en) * 2010-05-17 2011-11-24 University Of Southern California Grp78 gene polymorphism rs391957 is associated with tumor recurrence and survival in gastrointestinal cancer patients
DK2661494T3 (en) 2011-01-07 2019-09-02 Applied Genetic Tech Corporation Promoters, expression cassettes and vectors for use in the treatment of achromatopsia and other diseases
EP2835424B1 (en) * 2012-04-03 2019-02-20 National Center For Child Health And Development DNA CONTROLLING miR-140 EXPRESSION, AND SCREENING METHOD OF DRUGS USING SAID DNA
US9163259B2 (en) 2012-05-04 2015-10-20 Novartis Ag Viral vectors for the treatment of retinal dystrophy
WO2014031079A1 (en) * 2012-08-21 2014-02-27 Singapore Health Services Pte Ltd Method and/or probe for determining glaucoma susceptibility
WO2014159434A1 (en) 2013-03-14 2014-10-02 Monsanto Technology Llc Plant regulatory elements and uses thereof
US9701985B2 (en) 2013-06-04 2017-07-11 Virginia Commonwealth University mda-9/syntenin promoter to image and treat metastatic cancer cells
AU2015208247B2 (en) 2014-01-21 2021-05-27 Universiteit Gent Muscle-specific nucleic acid regulatory elements and methods and use thereof
US20150276767A1 (en) * 2014-03-12 2015-10-01 The University Of Sydney Systems and methods for identifying cancers having activated progesterone receptors
ES2843848T3 (en) 2014-03-21 2021-07-20 Life Technologies Corp Reference test for multiple copies
CN103981185B (en) * 2014-04-14 2016-04-27 浙江理工大学 Liver cancer-specific GP73 core promoter and screening construction process thereof
KR101791296B1 (en) 2014-04-17 2017-10-27 제주대학교 산학협력단 Expression cassette and vector with genes related Alzheimer's disease and transgenic cell line made from it
JP6655075B2 (en) 2014-11-17 2020-02-26 コンテクスト バイオファーマ インコーポレイテッド Onapristone sustained release compositions and methods
CN104673797B (en) * 2015-02-09 2018-02-02 苏州大学 Participate in long-chain non-coding RNA and its application of human body cell ionising radiation stress reaction
US10900036B2 (en) 2015-03-17 2021-01-26 The General Hospital Corporation RNA interactome of polycomb repressive complex 1 (PRC1)
US20180187190A1 (en) * 2015-06-12 2018-07-05 Erasmus University Medical Center Rotterdam New crispr assays
JP2018528944A (en) 2015-09-25 2018-10-04 コンテクスト バイオファーマ インコーポレイテッド Method for producing onapristone intermediate
AU2016370499B2 (en) 2015-12-15 2022-06-30 Context Biopharma Inc. Amorphous onapristone compositions and methods of making the same
PE20181922A1 (en) 2016-04-15 2018-12-11 Univ Pennsylvania GENE THERAPY TO TREAT HEMOPHILIA A
WO2018102369A1 (en) 2016-11-30 2018-06-07 Arno Therapeutics, Inc. Methods for onapristone synthesis dehydration and deprotection
WO2018111104A1 (en) * 2016-12-14 2018-06-21 Erasmus University Medical Center Rotterdam Use of human crispr sequences in diagnostics
EP3600445A1 (en) * 2017-03-27 2020-02-05 Vrije Universiteit Brussel Diaphragm-specific nucleic acid regulatory elements and methods and use thereof
AU2018250161B2 (en) * 2017-04-03 2024-04-04 Encoded Therapeutics, Inc. Tissue selective transgene expression
CN114875051A (en) * 2017-05-31 2022-08-09 北卡罗来纳大学教堂山分校 Optimized human coagulation factor IX gene expression cassette and application thereof
RU2671156C1 (en) * 2017-08-21 2018-10-29 Общество с ограниченной ответственностью "Центр Генетики и Репродуктивной Медицины "ГЕНЕТИКО" Method of preimplantation genetic diagnostics of type 1 spinal muscular atrophy
WO2019097122A1 (en) * 2017-11-20 2019-05-23 Turun Yliopisto A novel cip2a variant and uses thereof
EP3874065A4 (en) * 2018-10-31 2022-07-20 Rutgers, The State University of New Jersey Gramc: genome-scale reporter assay method for cis-regulatory modules
FR3088194B1 (en) * 2018-11-09 2021-02-19 Univ Paris Sud USING THE MICRORNA MIR-27A-5P TO TREAT CLOSTRIDIUM DIFFICILE INTESTINAL INFLAMMATION
US20220170110A1 (en) * 2019-04-05 2022-06-02 Korea Advanced Institute Of Science And Technology Cancer diagnostic marker using transposase-accessible chromatin sequencing information about individual, and use thereof
KR102192455B1 (en) * 2019-04-05 2020-12-17 한국과학기술원 A cancer diagnosis marker based on ATAC-Seq and Method using the same
CN110117659B (en) * 2019-06-18 2022-10-11 上海奕谱生物科技有限公司 Novel tumor marker STAMP-EP10 and application thereof
BR112022023410A2 (en) * 2020-05-19 2022-12-20 Ixaka France PROMOTER SEQUENCES FOR IN VITRO AND IN VIVO EXPRESSION OF GENE THERAPY PRODUCTS IN CD3+ CELLS
MX2022009576A (en) 2020-05-27 2022-09-09 Univ Zuerich Novel transduction enhancers and uses thereof.
US11781156B2 (en) 2020-10-09 2023-10-10 Tenaya Therapeutics, Inc. Plakophillin-2 gene therapy methods and compositions
CN115698304A (en) * 2020-10-09 2023-02-03 特纳亚治疗股份有限公司 Methods and compositions for vinculin-2 gene therapy
WO2022212766A2 (en) * 2021-03-31 2022-10-06 Hunterian Medicine Llc Compact promoters for gene expression
CN113265428B (en) * 2021-06-11 2023-03-14 东北林业大学 Detection system for constructing copper change in living cells by utilizing metallothionein and application
WO2023150553A1 (en) * 2022-02-01 2023-08-10 University Of Rochester Gpr17 promoter-based targeting and transduction of glial progenitor cells
WO2024001172A1 (en) * 2022-06-27 2024-01-04 Ractigen Therapeutics Oligonucleotide modulators activating complement factor h expression

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Non-Patent Citations (6)

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Title
COOPER SARA J ET AL: "Comprehensive analysis of transcriptional promoter structure and function in 1% of the human genome.", GENOME RESEARCH JAN 2006, vol. 16, no. 1, 12 December 2005 (2005-12-12), pages 1 - 10, XP009126140, ISSN: 1088-9051 *
ENCODE PROJECT CONSORTIUM: "The ENCODE (ENCyclopedia Of DNA Elements) Project.", SCIENCE (NEW YORK, N.Y.) 22 OCT 2004, vol. 306, no. 5696, 22 October 2004 (2004-10-22), pages 636 - 640, XP009126138, ISSN: 1095-9203 *
KIM TAE HOON ET AL: "Direct isolation and identification of promoters in the human genome.", GENOME RESEARCH JUN 2005, vol. 15, no. 6, June 2005 (2005-06-01), pages 830 - 839, XP002412922, ISSN: 1088-9051 *
TRINKLEIN NATHAN D ET AL: "An abundance of bidirectional promoters in the human genome.", GENOME RESEARCH, vol. 14, no. 1, January 2004 (2004-01-01), pages 62 - 66, XP009126141, ISSN: 1088-9051 *
TRINKLEIN NATHAN D ET AL: "Identification and functional analysis of human transcriptional promoters.", GENOME RESEARCH FEB 2003, vol. 13, no. 2, February 2003 (2003-02-01), pages 308 - 312, XP009126139, ISSN: 1088-9051 *
WILSON V S ET AL: "A NOVEL CELL LINE, MDA-KB2, THAT STABLY EXPRESSES AN ANDROGEN- AND GLUCOCORTICOID-RESPONSIVE REPORTER FOR THE DETECTION OF HORMONE RECEPTOR AGONISTS AND ANTAGONISTS", TOXICOLOGICAL SCIENCES, ACADEMIC PRESS, SAN DIEGO, FL, US, vol. 66, no. 1, 1 March 2002 (2002-03-01), pages 69 - 81, XP009028294, ISSN: 1096-6080 *

Also Published As

Publication number Publication date
WO2007078599A8 (en) 2008-10-30
WO2007078599A9 (en) 2007-10-04
EP2021499A2 (en) 2009-02-11
WO2007078599A3 (en) 2008-08-28
JP2009519710A (en) 2009-05-21
WO2007078599A2 (en) 2007-07-12

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