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Volumn 11, Issue 2, 2014, Pages 190-196

Transcriptome in vivo analysis (TIVA) of spatially defined single cells in live tissue

Author keywords

[No Author keywords available]

Indexed keywords

ANIMALS; BRAIN; COMPUTATIONAL BIOLOGY; GENE EXPRESSION PROFILING; GENE LIBRARY; HIGH-THROUGHPUT NUCLEOTIDE SEQUENCING; HIPPOCAMPUS; HUMANS; MICE; MICE, INBRED C57BL; NEURONS; RNA, MESSENGER; SEQUENCE ANALYSIS, RNA;

EID: 84895071445     PISSN: 15487091     EISSN: 15487105     Source Type: Journal    
DOI: 10.1038/nmeth.2804     Document Type: Article
Times cited : (220)

References (42)
  • 1
    • 19544379881 scopus 로고    scopus 로고
    • Stochasticity in gene expression: From theories to phenotypes
    • Kaern, M., Elston, T.C., Blake, W.J. & Collins, J.J. Stochasticity in gene expression: From theories to phenotypes. Nat. Rev. Genet. 6, 451-464 (.2005
    • (2005) Nat. Rev. Genet , vol.6 , pp. 451-464
    • Kaern, M.1    Elston, T.C.2    Blake, W.J.3    Collins, J.J.4
  • 2
    • 53549123008 scopus 로고    scopus 로고
    • Van Oudenaarden A. Nature nurture or chance: Stochastic gene expression and its consequences
    • Raj, A. & van Oudenaarden, A. Nature, nurture, or chance: Stochastic gene expression and its consequences. Cell 135, 216-226 (.2008
    • (2008) Cell , vol.135 , pp. 216-226
    • Raj, A.1
  • 3
    • 77956520011 scopus 로고    scopus 로고
    • Functional roles for noise in genetic circuits
    • Eldar, A. & Elowitz, M.B. Functional roles for noise in genetic circuits. Nature 467, 167-173 (.2010
    • (2010) Nature , vol.467 , pp. 167-173
    • Eldar, A.1    Elowitz, M.B.2
  • 4
    • 0037119587 scopus 로고    scopus 로고
    • Stochastic gene expression in a single cell
    • Elowitz, M.B., Levine, A.J., Siggia, E.D. & Swain, P.S. Stochastic gene expression in a single cell. Science 297, 1183-1186 (.2002
    • (2002) Science , vol.297 , pp. 1183-1186
    • Elowitz, M.B.1    Levine, A.J.2    Siggia, E.D.3    Swain, P.S.4
  • 5
    • 79955021823 scopus 로고    scopus 로고
    • Single-cell gene-expression profiling reveals qualitatively distinct CD8 T cells elicited by different gene-based vaccines
    • Flatz, L. et al. Single-cell gene-expression profiling reveals qualitatively distinct CD8 T cells elicited by different gene-based vaccines. Proc. Natl. Acad. Sci. USA 108, 5724-5729 (.2011
    • (2011) Proc. Natl. Acad. Sci. USA , vol.108 , pp. 5724-5729
    • Flatz, L.1
  • 6
    • 77955102352 scopus 로고    scopus 로고
    • Quantifying E. Coli proteome and transcriptome with single-molecule sensitivity in single cells
    • Taniguchi, Y. et al. Quantifying E. Coli proteome and transcriptome with single-molecule sensitivity in single cells. Science 329, 533-538 (.2010
    • (2010) Science , vol.329 , pp. 533-538
    • Taniguchi, Y.1
  • 7
    • 15544388848 scopus 로고    scopus 로고
    • Noise propagation in gene networks
    • Pedraza, J.M. & van Oudenaarden, A. Noise propagation in gene networks. Science 307, 1965-1969 (.2005
    • (2005) Science , vol.307 , pp. 1965-1969
    • Pedraza, J.M.1    Van Oudenaarden, A.2
  • 8
    • 38149129457 scopus 로고    scopus 로고
    • A transcriptome database for astrocytes, neurons, and oligodendrocytes: A new resource for understanding brain development and function
    • Cahoy, J.D. et al. A transcriptome database for astrocytes, neurons, and oligodendrocytes: A new resource for understanding brain development and function. J. Neurosci. 28, 264-278 (.2008
    • (2008) J. Neurosci , vol.28 , pp. 264-278
    • Cahoy, J.D.1
  • 9
    • 35548983491 scopus 로고    scopus 로고
    • The transcriptome and metabolic gene signature of protoplasmic astrocytes in the adult murine cortex
    • Lovatt, D. et al. The transcriptome and metabolic gene signature of protoplasmic astrocytes in the adult murine cortex. J. Neurosci. 27, 12255-12266 (.2007
    • (2007) J. Neurosci , vol.27 , pp. 12255-12266
    • Lovatt, D.1
  • 10
    • 29444452573 scopus 로고    scopus 로고
    • Molecular taxonomy of major neuronal classes in the adult mouse forebrain
    • Sugino, K. et al. Molecular taxonomy of major neuronal classes in the adult mouse forebrain. Nat. Neurosci. 9, 99-107 (.2006
    • (2006) Nat. Neurosci , vol.9 , pp. 99-107
    • Sugino, K.1
  • 11
    • 84868568364 scopus 로고    scopus 로고
    • Quantitative biology of single neurons
    • Eberwine, J. et al. Quantitative biology of single neurons. J. R. Soc. Interface 9, 3165-3183 (.2012
    • (2012) J. R. Soc. Interface , vol.9 , pp. 3165-3183
    • Eberwine, J.1
  • 12
    • 34548707114 scopus 로고    scopus 로고
    • Laser-capture microdissection
    • Espina, V. et al. Laser-capture microdissection. Nat. Protoc. 1, 586-603 (.2006
    • (2006) Nat. Protoc , vol.1 , pp. 586-603
    • Espina, V.1
  • 13
    • 67349146589 scopus 로고    scopus 로고
    • Mrna-seq whole-transcriptome analysis of a single cell
    • Tang, F. et al. mRNA-seq whole-transcriptome analysis of a single cell. Nat. Methods 6, 377-382 (.2009
    • (2009) Nat. Methods , vol.6 , pp. 377-382
    • Tang, F.1
  • 14
    • 79551520605 scopus 로고    scopus 로고
    • A quantitative comparison of cell-type-specific microarray gene expression profiling methods in the mouse brain
    • Okaty, B.W., Sugino, K. & Nelson, S.B. A quantitative comparison of cell-type-specific microarray gene expression profiling methods in the mouse brain. PLoS ONE 6, e16493 (.2011
    • (2011) PLoS ONE , vol.6
    • Okaty, B.W.1    Sugino, K.2    Nelson, S.B.3
  • 15
    • 1542609485 scopus 로고    scopus 로고
    • Transduction peptides: From technology to physiology
    • Joliot, A. & Prochiantz, A. Transduction peptides: From technology to physiology. Nat. Cell Biol. 6, 189-196 (.2004
    • (2004) Nat. Cell Biol , vol.6 , pp. 189-196
    • Joliot, A.1    Prochiantz, A.2
  • 16
    • 34447114618 scopus 로고    scopus 로고
    • Transvascular delivery of small interfering RNA to the central nervous system
    • Kumar, P. et al. Transvascular delivery of small interfering RNA to the central nervous system. Nature 448, 39-43 (.2007
    • (2007) Nature , vol.448 , pp. 39-43
    • Kumar, P.1
  • 17
    • 34548736002 scopus 로고    scopus 로고
    • A protocol for PAIR: PNA-Assisted identification of RNA binding proteins in living cells
    • Zeng, F. et al. A protocol for PAIR: PNA-Assisted identification of RNA binding proteins in living cells. Nat. Protoc. 1, 920-927 (.2006
    • (2006) Nat. Protoc , vol.1 , pp. 920-927
    • Zeng, F.1
  • 18
    • 31944452549 scopus 로고    scopus 로고
    • In vivo identification of ribonucleoprotein-RNA interactions
    • Zielinski, J. et al. In vivo identification of ribonucleoprotein-RNA interactions. Proc. Natl. Acad. Sci. USA 103, 1557-1562 (.2006
    • (2006) Proc. Natl. Acad. Sci. USA , vol.103 , pp. 1557-1562
    • Zielinski, J.1
  • 19
    • 0027480532 scopus 로고
    • Controlling cell chemistry with caged compounds
    • Adams, S.R. & Tsien, R.Y. Controlling cell chemistry with caged compounds. Annu. Rev. Physiol. 55, 755-784 (.1993
    • (1993) Annu. Rev. Physiol , vol.55 , pp. 755-784
    • Adams, S.R.1    Tsien, R.Y.2
  • 20
    • 34547898002 scopus 로고    scopus 로고
    • Synthesis of light-Activated antisense oligodeoxynucleotide
    • Tang, X. & Dmochowski, I.J. Synthesis of light-Activated antisense oligodeoxynucleotide. Nat. Protoc. 1, 3041-3048 (.2006
    • (2006) Nat. Protoc , vol.1 , pp. 3041-3048
    • Tang, X.1    Dmochowski, I.J.2
  • 21
    • 34547863548 scopus 로고    scopus 로고
    • Taking control of gene expression with light-Activated oligonucleotides
    • Dmochowski, I.J. & Tang, X. Taking control of gene expression with light-Activated oligonucleotides. Biotechniques 43, 161-165 (.2007
    • (2007) Biotechniques , vol.43 , pp. 161-165
    • Dmochowski, I.J.1    Tang, X.2
  • 22
    • 79959365312 scopus 로고    scopus 로고
    • Mechanisms of cellular uptake of cell-penetrating peptides
    • Madani, F., Lindberg, S., Langel, U., Futaki, S. & Graslund, A. Mechanisms of cellular uptake of cell-penetrating peptides. J. Biophys. 2011, 414729 (.2011
    • (2011) J. Biophys , vol.2011 , pp. 414729
    • Madani, F.1    Lindberg, S.2    Langel, U.3    Futaki, S.4    Graslund, A.5
  • 24
    • 44449134820 scopus 로고    scopus 로고
    • A practical guide to single-molecule FRET
    • Roy, R., Hohng, S. & Ha, T. A practical guide to single-molecule FRET. Nat. Methods 5, 507-516 (.2008
    • (2008) Nat. Methods , vol.5 , pp. 507-516
    • Roy, R.1    Hohng, S.2    Ha, T.3
  • 25
    • 0026588147 scopus 로고
    • Analysis of gene expression in single live neurons
    • Eberwine, J. et al. Analysis of gene expression in single live neurons. Proc. Natl. Acad. Sci. USA 89, 3010-3014 (.1992
    • (1992) Proc. Natl. Acad. Sci. USA , vol.89 , pp. 3010-3014
    • Eberwine, J.1
  • 26
    • 80355127997 scopus 로고    scopus 로고
    • Transcriptome analysis of single cells
    • Morris, J., Singh, J.M. & Eberwine, J.H. Transcriptome analysis of single cells. J. Vis. Exp. 2011, 2634 (.2011
    • (2011) J. Vis. Exp , vol.2011 , pp. 2634
    • Morris, J.1    Singh, J.M.2    Eberwine, J.H.3
  • 27
    • 84864880991 scopus 로고    scopus 로고
    • Full-length mRNA-Seq from single-cell levels of RNA and individual circulating tumor cells
    • Ramskold, D. et al. Full-length mRNA-Seq from single-cell levels of RNA and individual circulating tumor cells. Nat. Biotechnol. 30, 777-782 (.2012
    • (2012) Nat. Biotechnol , vol.30 , pp. 777-782
    • Ramskold, D.1
  • 28
    • 77957663917 scopus 로고    scopus 로고
    • Alternative expression analysis by RNA sequencing
    • Griffith, M. et al. Alternative expression analysis by RNA sequencing. Nat. Methods 7, 843-847 (.2010
    • (2010) Nat. Methods , vol.7 , pp. 843-847
    • Griffith, M.1
  • 29
    • 79960557820 scopus 로고    scopus 로고
    • Bias detection and correction in RNA-Sequencing data
    • Zheng, W., Chung, L.M. & Zhao, H. Bias detection and correction in RNA-Sequencing data. BMC Bioinformatics 12, 290 (.2011
    • (2011) BMC Bioinformatics , vol.12 , Issue.290
    • Zheng, W.1    Chung, L.M.2    Zhao, H.3
  • 30
    • 84879692466 scopus 로고    scopus 로고
    • Comparative analysis of RNA sequencing methods for degraded or low-input samples
    • Adiconis, X. et al. Comparative analysis of RNA sequencing methods for degraded or low-input samples. Nat. Methods 10, 623-629 (.2013
    • (2013) Nat. Methods , vol.10 , pp. 623-629
    • Adiconis, X.1
  • 31
    • 84855331824 scopus 로고    scopus 로고
    • Transposase mediated construction of RNA-seq libraries
    • Gertz, J. et al. Transposase mediated construction of RNA-seq libraries. Genome Res. 22, 134-141 (.2012
    • (2012) Genome Res , vol.22 , pp. 134-141
    • Gertz, J.1
  • 32
    • 34547638628 scopus 로고    scopus 로고
    • Caged compounds: Photorelease technology for control of cellular chemistry and physiology
    • Ellis-Davies, G.C. Caged compounds: Photorelease technology for control of cellular chemistry and physiology. Nat. Methods 4, 619-628 (.2007
    • (2007) Nat. Methods , vol.4 , pp. 619-628
    • Ellis-Davies, G.C.1
  • 33
    • 0035515531 scopus 로고    scopus 로고
    • Defining glial cells during CNS development
    • Zhang, S.C. Defining glial cells during CNS development. Nat. Rev. Neurosci. 2, 840-843 (.2001
    • (2001) Nat. Rev. Neurosci , vol.2 , pp. 840-843
    • Zhang, S.C.1
  • 34
    • 0029956517 scopus 로고    scopus 로고
    • Expression of the myelin basic protein gene locus in neurons and oligodendrocytes in the human fetal central nervous system
    • Pribyl, T.M. et al. Expression of the myelin basic protein gene locus in neurons and oligodendrocytes in the human fetal central nervous system. J. Comp. Neurol. 374, 342-353 (.1996
    • (1996) J. Comp. Neurol , vol.374 , pp. 342-353
    • Pribyl, T.M.1
  • 35
    • 0029881927 scopus 로고    scopus 로고
    • Myelin basic protein gene expression in neurons: Developmental and regional changes in protein targeting within neuronal nuclei, cell bodies, and processes
    • Landry, C.F. et al. Myelin basic protein gene expression in neurons: Developmental and regional changes in protein targeting within neuronal nuclei, cell bodies, and processes. The J. Neurosci. 16, 2452-2462 (.1996
    • (1996) J. Neurosci , vol.16 , pp. 2452-2462
    • Landry, C.F.1
  • 36
    • 0347927492 scopus 로고    scopus 로고
    • Visualization of S100B-positive neurons and glia in the central nervous system of EGFP transgenic mice
    • Vives, V., Alonso, G., Solal, A.C., Joubert, D. & Legraverend, C. Visualization of S100B-positive neurons and glia in the central nervous system of EGFP transgenic mice. J. Comp. Neurol. 457, 404-419 (.2003
    • (2003) J. Comp. Neurol , vol.457 , pp. 404-419
    • Vives, V.1    Alonso, G.2    Solal, A.C.3    Joubert, D.4    Legraverend, C.5
  • 37
    • 0036884163 scopus 로고    scopus 로고
    • Regulation of transcription factors by neuronal activity
    • West, A.E., Griffith, E.C. & Greenberg, M.E. Regulation of transcription factors by neuronal activity. Nat. Rev. Neurosci. 3, 921-931 (.2002
    • (2002) Nat. Rev. Neurosci , vol.3 , pp. 921-931
    • West, A.E.1    Griffith, E.C.2    Greenberg, M.E.3
  • 38
    • 29344436510 scopus 로고    scopus 로고
    • Cell-penetrating peptide conjugates of peptide nucleic acids (.PNA) as inhibitors of HIV-1 Tat-dependent trans-Activation in cells
    • Turner, J.J. et al. Cell-penetrating peptide conjugates of peptide nucleic acids (.PNA) as inhibitors of HIV-1 Tat-dependent trans-Activation in cells. Nucleic Acids Res. 33, 6837-6849 (.2005
    • (2005) Nucleic Acids Res , vol.33 , pp. 6837-6849
    • Turner, J.J.1
  • 40
    • 0029846684 scopus 로고    scopus 로고
    • Calcium-dependent paired-pulse facilitation of miniature EPSC frequency accompanies depression of EPSCs at hippocampal synapses in culture
    • Cummings, D.D., Wilcox, K.S. & Dichter, M.A. Calcium-dependent paired-pulse facilitation of miniature EPSC frequency accompanies depression of EPSCs at hippocampal synapses in culture. J. Neurosci. 16, 5312-5323 (.1996
    • (1996) J. Neurosci , vol.16 , pp. 5312-5323
    • Cummings, D.D.1    Wilcox, K.S.2    Dichter, M.A.3
  • 41
    • 80052745094 scopus 로고    scopus 로고
    • Comparative analysis of RNA-Seq alignment algorithms and the RNA-Seq unified mapper (.RUM
    • Grant, G.R. et al. Comparative analysis of RNA-Seq alignment algorithms and the RNA-Seq unified mapper (.RUM). Bioinformatics 27, 2518-2528 (.2011
    • (2011) Bioinformatics , vol.27 , pp. 2518-2528
    • Grant, G.R.1
  • 42
    • 77958471357 scopus 로고    scopus 로고
    • Differential expression analysis for sequence count data
    • Anders, S. & Huber, W. Differential expression analysis for sequence count data. Genome Biol. 11, R106 (.2010
    • (2010) Genome Biol , vol.11
    • Anders, S.1    Huber, W.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.