WO2012106711A3 - A method for detecting chromosome structure and gene expression simultaneously in single cells - Google Patents

A method for detecting chromosome structure and gene expression simultaneously in single cells Download PDF

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Publication number
WO2012106711A3
WO2012106711A3 PCT/US2012/023974 US2012023974W WO2012106711A3 WO 2012106711 A3 WO2012106711 A3 WO 2012106711A3 US 2012023974 W US2012023974 W US 2012023974W WO 2012106711 A3 WO2012106711 A3 WO 2012106711A3
Authority
WO
WIPO (PCT)
Prior art keywords
gene expression
present
single cells
chromosome structure
chromosome
Prior art date
Application number
PCT/US2012/023974
Other languages
French (fr)
Other versions
WO2012106711A2 (en
Inventor
Arjun Raj
Marshall J. LEVESQUE
Original Assignee
The Trustees Of The University Of Pennsylvania
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 The Trustees Of The University Of Pennsylvania filed Critical The Trustees Of The University Of Pennsylvania
Priority to CN201280016912.7A priority Critical patent/CN104169433A/en
Priority to ES12742591.6T priority patent/ES2657923T3/en
Priority to JP2013552715A priority patent/JP6247934B2/en
Priority to EP12742591.6A priority patent/EP2670867B1/en
Priority to US13/982,974 priority patent/US10308983B2/en
Priority to CA2826384A priority patent/CA2826384C/en
Priority to AU2012211957A priority patent/AU2012211957B2/en
Publication of WO2012106711A2 publication Critical patent/WO2012106711A2/en
Publication of WO2012106711A3 publication Critical patent/WO2012106711A3/en

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Classifications

    • 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
    • C12Q1/6841—In situ hybridisation
    • 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
    • C12Q2600/00—Oligonucleotides characterized by their use
    • C12Q2600/158—Expression markers

Landscapes

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

Abstract

The present invention relates to systems and methods for measuring chromosome structure and gene expression. In one embodiment, the present invention includes an assay for determining the spatial organization of gene expression in the nucleus. The present invention also includes a method based on fluorescence in situ hybridization (FISI-I) that simultaneously yields information on the physical position and expression of individual genes, By lighting up a large number of targets on a particular chromosome using a bar- coding scheme, the large scale structure of an entire chromosome can be determined.
PCT/US2012/023974 2011-02-04 2012-02-06 A method for detecting chromosome structure and gene expression simultaneously in single cells WO2012106711A2 (en)

Priority Applications (7)

Application Number Priority Date Filing Date Title
CN201280016912.7A CN104169433A (en) 2011-02-04 2012-02-06 A method for detecting chromosome structure and gene expression simultaneously in single cells
ES12742591.6T ES2657923T3 (en) 2011-02-04 2012-02-06 A method to simultaneously detect chromosomal structure and gene expression in loose cells
JP2013552715A JP6247934B2 (en) 2011-02-04 2012-02-06 Method for simultaneously detecting chromosomal structure and gene expression in a single cell
EP12742591.6A EP2670867B1 (en) 2011-02-04 2012-02-06 A method for detecting chromosome structure and gene expression simultaneously in single cells
US13/982,974 US10308983B2 (en) 2011-02-04 2012-02-06 Method for detecting chromosome structure and gene expression simultaneously in single cells
CA2826384A CA2826384C (en) 2011-02-04 2012-02-06 A method for detecting chromosome structure and gene expression simultaneously in single cells
AU2012211957A AU2012211957B2 (en) 2011-02-04 2012-02-06 A method for detecting chromosome structure and gene expression simultaneously in single cells

Applications Claiming Priority (2)

Application Number Priority Date Filing Date Title
US201161439623P 2011-02-04 2011-02-04
US61/439,623 2011-02-04

Publications (2)

Publication Number Publication Date
WO2012106711A2 WO2012106711A2 (en) 2012-08-09
WO2012106711A3 true WO2012106711A3 (en) 2014-03-13

Family

ID=46603352

Family Applications (1)

Application Number Title Priority Date Filing Date
PCT/US2012/023974 WO2012106711A2 (en) 2011-02-04 2012-02-06 A method for detecting chromosome structure and gene expression simultaneously in single cells

Country Status (8)

Country Link
US (1) US10308983B2 (en)
EP (1) EP2670867B1 (en)
JP (1) JP6247934B2 (en)
CN (1) CN104169433A (en)
AU (1) AU2012211957B2 (en)
CA (1) CA2826384C (en)
ES (1) ES2657923T3 (en)
WO (1) WO2012106711A2 (en)

Families Citing this family (7)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US9273349B2 (en) 2013-03-14 2016-03-01 Affymetrix, Inc. Detection of nucleic acids
WO2015002978A2 (en) * 2013-07-02 2015-01-08 The Trustees Of The University Of Pennsylvania Methods for rapid ribonucleic acid fluorescence in situ hybridization
EP3031929A1 (en) * 2014-12-11 2016-06-15 Mdc Max-Delbrück-Centrum Für Molekulare Medizin Berlin - Buch Genome architecture mapping
WO2016196229A1 (en) * 2015-06-01 2016-12-08 Cellular Research, Inc. Methods for rna quantification
WO2018214249A1 (en) * 2017-05-22 2018-11-29 立森印迹诊断技术（无锡）有限公司 Imprinted gene grading model, system composed of same, and application of same
US11946095B2 (en) 2017-12-19 2024-04-02 Becton, Dickinson And Company Particles associated with oligonucleotides
US11371076B2 (en) 2019-01-16 2022-06-28 Becton, Dickinson And Company Polymerase chain reaction normalization through primer titration

Citations (1)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
WO2011011527A2 (en) * 2009-07-21 2011-01-27 Neodiagnostix, Inc. Method and system for automated image analysis in cancer cells

Family Cites Families (7)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US5925517A (en) * 1993-11-12 1999-07-20 The Public Health Research Institute Of The City Of New York, Inc. Detectably labeled dual conformation oligonucleotide probes, assays and kits
EP1179185B1 (en) * 1999-05-07 2009-08-12 Life Technologies Corporation A method of detecting an analyte using semiconductor nanocrystals
DE19935766A1 (en) * 1999-07-29 2001-02-01 Friedrich Schiller Uni Jena Bu Process for the optical excitation of fluorophore-labeled DNA and RNA
US20070196820A1 (en) * 2005-04-05 2007-08-23 Ravi Kapur Devices and methods for enrichment and alteration of cells and other particles
CN101688237A (en) * 2007-01-11 2010-03-31 伊拉兹马斯大学医疗中心 Circular chromosome conformation capture (4C)
EP2255190A4 (en) 2008-02-12 2011-05-04 Brigham & Womens Hospital FISH ASSAY TO DETECT FUSION BETWEEN EML4 AND ALK IN LUNG CANCER
US9896720B2 (en) 2008-09-10 2018-02-20 Rutgers, The State University Of New Jersey Imaging individual mRNA molecules using multiple singly labeled probes

Patent Citations (1)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
WO2011011527A2 (en) * 2009-07-21 2011-01-27 Neodiagnostix, Inc. Method and system for automated image analysis in cancer cells

Non-Patent Citations (1)

* Cited by examiner, † Cited by third party
Title
TANKE ET AL.: "FISH and immunocytochemistry: towards visualising single target molecules in living cells.", CURR OPIN BIOTECHNOL, vol. 16, no. 1, February 2005 (2005-02-01), pages 49 - 54, XP004756196 *

Also Published As

Publication number Publication date
US20140024032A1 (en) 2014-01-23
EP2670867A2 (en) 2013-12-11
JP6247934B2 (en) 2017-12-13
CN104169433A (en) 2014-11-26
WO2012106711A2 (en) 2012-08-09
EP2670867B1 (en) 2017-11-01
ES2657923T3 (en) 2018-03-07
US10308983B2 (en) 2019-06-04
JP2014513917A (en) 2014-06-19
EP2670867A4 (en) 2015-08-12
AU2012211957A1 (en) 2013-08-15
CA2826384A1 (en) 2012-08-09
CA2826384C (en) 2020-08-04
AU2012211957B2 (en) 2017-02-23

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