Methods for high-throughput labelling and detection of biological features in situ using microscopy

Church, George M.; Lee, Je-Hyuk; Daugharthy, Evan R.

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Title: Methods for high-throughput labelling and detection of biological features in situ using microscopy

Abstract

Methods of labelling one or more subcellular components (e.g., an organelle and/or subcellular region) in vivo are provided. Methods of labelling a protein in vivo are provided. Methods of determining a nucleic acid sequence in situ are also provided.

Inventors:: Church, George M.; Lee, Je-Hyuk; Daugharthy, Evan R.

Issue Date:: Tue Jan 15 00:00:00 EST 2019

Research Org.:: Harvard Univ., Cambridge, MA (United States)

Sponsoring Org.:: USDOE

OSTI Identifier:: 1531401

Patent Number(s):: 10179932

Application Number:: 15/325,577

Assignee:: President and Fellows of Harvard College (Cambridge, MA)

Patent Classifications (CPCs):: C - CHEMISTRY C07 - ORGANIC CHEMISTRY C07H - SUGARS

C - CHEMISTRY C12 - BIOCHEMISTRY C12Q - MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS

Show more

C - CHEMISTRY C07 - ORGANIC CHEMISTRY C07H - SUGARS
C07H21/02 - with ribosyl as saccharide radical
C07H21/04 - with deoxyribosyl as saccharide radical

C - CHEMISTRY C12 - BIOCHEMISTRY C12Q - MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS
C12Q1/6841 - In situ hybridisation
C12Q1/6844 - Nucleic acid amplification reactions
C12Q2522/101 - Single or double stranded nucleic acid binding proteins
C12Q2531/125 - Rolling circle
C12Q2543/101 - in situ amplification

Show less

DOE Contract Number:: FG02-02ER63445

Resource Type:: Patent

Resource Relation:: Patent File Date: 2015-07-10

Country of Publication:: United States

Language:: English

Subject:: 59 BASIC BIOLOGICAL SCIENCES; 37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CHEMISTRY

Citation Formats


                    Church, George M., Lee, Je-Hyuk, and Daugharthy, Evan R. Methods for high-throughput labelling and detection of biological features in situ using microscopy.  United States: N. p., 2019. 
        Web.

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                    Church, George M., Lee, Je-Hyuk, & Daugharthy, Evan R. Methods for high-throughput labelling and detection of biological features in situ using microscopy.  United States.

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                    Church, George M., Lee, Je-Hyuk, and Daugharthy, Evan R. Tue .  
        "Methods for high-throughput labelling and detection of biological features in situ using microscopy".  United States.  https://www.osti.gov/servlets/purl/1531401.

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@article{osti_1531401,

  title        = {Methods for high-throughput labelling and detection of biological features in situ using microscopy},

  author       = {Church, George M. and Lee, Je-Hyuk and Daugharthy, Evan R.},

  abstractNote = {Methods of labelling one or more subcellular components (e.g., an organelle and/or subcellular region) in vivo are provided. Methods of labelling a protein in vivo are provided. Methods of determining a nucleic acid sequence in situ are also provided.},

  doi          = {},

  journal      = {},
number       = ,

  volume       = ,

  place        = {United States},

  year         = {Tue Jan 15 00:00:00 EST 2019},

  month        = {Tue Jan 15 00:00:00 EST 2019}

}

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Works referenced in this record:

RNA sequencing in situ
journal, June 2014

Ginart, Paul; Raj, Arjun
Nature Biotechnology, Vol. 32, Issue 6
https://doi.org/10.1038/nbt.2921

Highly Multiplexed Subcellular RNA Sequencing in Situ
journal, February 2014

Lee, J. H.; Daugharthy, E. R.; Scheiman, J.
Science, Vol. 343, Issue 6177
https://doi.org/10.1126/science.1250212

Automated Method for Detecting Cancers and High Grade Hyperplasias
patent-application, August 2009

Tafas, Triantafyallos P.; Tsipouras, Petros; Kilpatrick, Michael
US Patent Application 12/400975; 20090208965
URL: https://image-ppubs.uspto.gov/dirsearch-public/print/downloadPdf/20090208965

Preparation of crosslinked matrices containing covalently immobilized chemical species and unbound releasable chemical species
patent, October 1996

Swan, Dale G.; Josephson, Mark W.; Swanson, Melvin J.
US Patent Document 5,563,056
URL: https://image-ppubs.uspto.gov/dirsearch-public/print/downloadPdf/5563056

Gene expression analysis by massively parallel signature sequencing (MPSS) on microbead arrays
journal, June 2000

Brenner, Sydney; Johnson, Maria; Bridgham, John
Nature Biotechnology, Vol. 18, Issue 6
https://doi.org/10.1038/76469

Versatile nucleic acid hairpin motif for programming biomolecular self-assembly pathways
patent, December 2015

Yin, Peng; Pierce, Niles A.
US Patent Document 9,217,151
URL: https://image-ppubs.uspto.gov/dirsearch-public/print/downloadPdf/9217151

Isolation of three homologous AP1-like MADS-box genes in crocus (Crocus sativus L.) and characterization of their expression
journal, May 2004

Tsaftaris, Athanasios S.; Pasentsis, Konstantinos; Iliopoulos, Ioannis
Plant Science, Vol. 166, Issue 5
https://doi.org/10.1016/j.plantsci.2003.12.037

Single-cell RNA-seq: advances and future challenges
journal, July 2014

Saliba, Antoine-Emmanuel; Westermann, Alexander J.; Gorski, Stanislaw A.
Nucleic Acids Research, Vol. 42, Issue 14
https://doi.org/10.1093/nar/gku555

The rapid detection of unknown mutations in nucleic acids
journal, October 1993

Grompe, Markus
Nature Genetics, Vol. 5, Issue 2
https://doi.org/10.1038/ng1093-111

High-resolution in situ hybridization to whole-mount zebrafish embryos
journal, December 2007

Thisse, Christine; Thisse, Bernard
Nature Protocols, Vol. 3, Issue 1
https://doi.org/10.1038/nprot.2007.514

Four-color DNA sequencing by synthesis on a chip using photocleavable fluorescent nucleotides
journal, April 2005

Seo, T. S.; Bai, X.; Kim, D. H.
Proceedings of the National Academy of Sciences, Vol. 102, Issue 17, p. 5926-5931
https://doi.org/10.1073/pnas.0501965102

Methods of amplifying and sequencing nucleic acids
patent, January 2008

Leamon, John H.; Lohman, Kenton L.; Rothberg, Jonathan M.
US Patent Document 7,323,305
URL: https://image-ppubs.uspto.gov/dirsearch-public/print/downloadPdf/7323305

Protein targeting to subcellular organelles via mRNA localization
journal, February 2013

Weis, Benjamin L.; Schleiff, Enrico; Zerges, William
Biochimica et Biophysica Acta (BBA) - Molecular Cell Research, Vol. 1833, Issue 2
https://doi.org/10.1016/j.bbamcr.2012.04.004

Rolling circle amplification-RACE: a method for simultaneous isolation of 5′ and 3′ cDNA ends from amplified cDNA templates
journal, July 2006

Polidoros, Alexios N.; Pasentsis, Konstantinos; Tsaftaris, Athanasios S.
BioTechniques, Vol. 41, Issue 1
https://doi.org/10.2144/000112205

Here, there, everywhere: mRNA localization in budding yeast
journal, August 2014

Singer-Krüger, Birgit; Jansen, Ralf-Peter
RNA Biology, Vol. 11, Issue 8
https://doi.org/10.4161/rna.29945

mRNA on the Move: The Road to Its Biological Destiny
journal, July 2013

Eliscovich, Carolina; Buxbaum, Adina R.; Katz, Zachary B.
Journal of Biological Chemistry, Vol. 288, Issue 28
https://doi.org/10.1074/jbc.R113.452094

Methods for detection and quantification of analytes in complex mixtures
patent, January 2009

Dimitrov, Krassen
US Patent Document 7,473,767
URL: https://image-ppubs.uspto.gov/dirsearch-public/print/downloadPdf/7473767

Spatial expression of the genome: the signal hypothesis at forty
journal, April 2011

Matlin, Karl S.
Nature Reviews Molecular Cell Biology, Vol. 12, Issue 5
https://doi.org/10.1038/nrm3105

famRCA-RACE: A ROLLING CIRCLE AMPLIFICATION RACE FOR ISOLATING A FAMILY OF HOMOLOGOUS cDNAs IN ONE REACTION AND ITS APPLICATION TO OBTAIN NAC GENES TRANSCRIPTION FACTORS FROM CROCUS ( CROCUS SATIVUS ) FLOWER
journal, July 2010

Kalivas, Apostolos; Pasentsis, Konstantinos; Argiriou, Anagnostis
Preparative Biochemistry and Biotechnology, Vol. 40, Issue 3
https://doi.org/10.1080/10826068.2010.488507

Cis-acting determinants of asymmetric, cytoplasmic RNA transport
journal, May 2007

Jambhekar, A.; DeRisi, J. L.
RNA, Vol. 13, Issue 5
https://doi.org/10.1261/rna.262607

Identification of RNA-protein interaction networks using PAR-CLIP: Identification of RNA-protein interaction networks
journal, December 2011

Ascano, Manuel; Hafner, Markus; Cekan, Pavol
Wiley Interdisciplinary Reviews: RNA, Vol. 3, Issue 2
https://doi.org/10.1002/wrna.1103

Accurate Multiplex Polony Sequencing of an Evolved Bacterial Genome
journal, September 2005

Shendure, J.
Science, Vol. 309, Issue 5741
https://doi.org/10.1126/science.1117389

Quantum-dot-tagged microbeads for multiplexed optical coding of biomolecules
journal, July 2001

Han, Mingyong; Gao, Xiaohu; Su, Jack Z.
Nature Biotechnology, Vol. 19, Issue 7, p. 631-635
https://doi.org/10.1038/90228

Characterization of Genes Encoding Poly(A) Polymerases in Plants: Evidence for Duplication and Functional Specialization
journal, November 2009

Meeks, Lisa R.; Addepalli, Balasubrahmanyam; Hunt, Arthur G.
PLoS ONE, Vol. 4, Issue 11
https://doi.org/10.1371/journal.pone.0008082

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Similar Records

Title: Methods for high-throughput labelling and detection of biological features in situ using microscopy

Abstract

Citation Formats

RNA sequencing in situ journal, June 2014

Highly Multiplexed Subcellular RNA Sequencing in Situ journal, February 2014

Automated Method for Detecting Cancers and High Grade Hyperplasias patent-application, August 2009

Preparation of crosslinked matrices containing covalently immobilized chemical species and unbound releasable chemical species patent, October 1996

Gene expression analysis by massively parallel signature sequencing (MPSS) on microbead arrays journal, June 2000

Versatile nucleic acid hairpin motif for programming biomolecular self-assembly pathways patent, December 2015

Isolation of three homologous AP1-like MADS-box genes in crocus (Crocus sativus L.) and characterization of their expression journal, May 2004

Single-cell RNA-seq: advances and future challenges journal, July 2014

The rapid detection of unknown mutations in nucleic acids journal, October 1993

High-resolution in situ hybridization to whole-mount zebrafish embryos journal, December 2007

Four-color DNA sequencing by synthesis on a chip using photocleavable fluorescent nucleotides journal, April 2005

Methods of amplifying and sequencing nucleic acids patent, January 2008

Protein targeting to subcellular organelles via mRNA localization journal, February 2013

Rolling circle amplification-RACE: a method for simultaneous isolation of 5′ and 3′ cDNA ends from amplified cDNA templates journal, July 2006

Here, there, everywhere: mRNA localization in budding yeast journal, August 2014

mRNA on the Move: The Road to Its Biological Destiny journal, July 2013

Methods for detection and quantification of analytes in complex mixtures patent, January 2009

Spatial expression of the genome: the signal hypothesis at forty journal, April 2011

famRCA-RACE: A ROLLING CIRCLE AMPLIFICATION RACE FOR ISOLATING A FAMILY OF HOMOLOGOUS cDNAs IN ONE REACTION AND ITS APPLICATION TO OBTAIN NAC GENES TRANSCRIPTION FACTORS FROM CROCUS ( CROCUS SATIVUS ) FLOWER journal, July 2010

Cis-acting determinants of asymmetric, cytoplasmic RNA transport journal, May 2007

Identification of RNA-protein interaction networks using PAR-CLIP: Identification of RNA-protein interaction networks journal, December 2011

Accurate Multiplex Polony Sequencing of an Evolved Bacterial Genome journal, September 2005

Quantum-dot-tagged microbeads for multiplexed optical coding of biomolecules journal, July 2001

Characterization of Genes Encoding Poly(A) Polymerases in Plants: Evidence for Duplication and Functional Specialization journal, November 2009

RNA sequencing in situ
journal, June 2014

Highly Multiplexed Subcellular RNA Sequencing in Situ
journal, February 2014

Automated Method for Detecting Cancers and High Grade Hyperplasias
patent-application, August 2009

Preparation of crosslinked matrices containing covalently immobilized chemical species and unbound releasable chemical species
patent, October 1996

Gene expression analysis by massively parallel signature sequencing (MPSS) on microbead arrays
journal, June 2000

Versatile nucleic acid hairpin motif for programming biomolecular self-assembly pathways
patent, December 2015

Isolation of three homologous AP1-like MADS-box genes in crocus (Crocus sativus L.) and characterization of their expression
journal, May 2004

Single-cell RNA-seq: advances and future challenges
journal, July 2014

The rapid detection of unknown mutations in nucleic acids
journal, October 1993

High-resolution in situ hybridization to whole-mount zebrafish embryos
journal, December 2007

Four-color DNA sequencing by synthesis on a chip using photocleavable fluorescent nucleotides
journal, April 2005

Methods of amplifying and sequencing nucleic acids
patent, January 2008

Protein targeting to subcellular organelles via mRNA localization
journal, February 2013

Rolling circle amplification-RACE: a method for simultaneous isolation of 5′ and 3′ cDNA ends from amplified cDNA templates
journal, July 2006

Here, there, everywhere: mRNA localization in budding yeast
journal, August 2014

mRNA on the Move: The Road to Its Biological Destiny
journal, July 2013

Methods for detection and quantification of analytes in complex mixtures
patent, January 2009

Spatial expression of the genome: the signal hypothesis at forty
journal, April 2011

famRCA-RACE: A ROLLING CIRCLE AMPLIFICATION RACE FOR ISOLATING A FAMILY OF HOMOLOGOUS cDNAs IN ONE REACTION AND ITS APPLICATION TO OBTAIN NAC GENES TRANSCRIPTION FACTORS FROM CROCUS ( CROCUS SATIVUS ) FLOWER
journal, July 2010

Cis-acting determinants of asymmetric, cytoplasmic RNA transport
journal, May 2007

Identification of RNA-protein interaction networks using PAR-CLIP: Identification of RNA-protein interaction networks
journal, December 2011

Accurate Multiplex Polony Sequencing of an Evolved Bacterial Genome
journal, September 2005

Quantum-dot-tagged microbeads for multiplexed optical coding of biomolecules
journal, July 2001

Characterization of Genes Encoding Poly(A) Polymerases in Plants: Evidence for Duplication and Functional Specialization
journal, November 2009