메뉴 건너뛰기




Volumn 3, Issue 2, 2014, Pages 365-377

Gene expression variability as a unifying element of the pluripotency network

Author keywords

[No Author keywords available]

Indexed keywords

ARTICLE; CELL POPULATION; GENE EXPRESSION; GENE REGULATORY NETWORK; GENETIC VARIABILITY; HUMAN; HUMAN CELL; NUCLEOTIDE SEQUENCE; PHENOTYPE; PLURIPOTENT STEM CELL; PREDICTION; PRIORITY JOURNAL; STEM CELL; CELL PROLIFERATION; CYTOLOGY; EMBRYONIC STEM CELL; GENETICS; METABOLISM; PROTEIN DOMAIN;

EID: 84924220347     PISSN: 22136711     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.stemcr.2014.06.008     Document Type: Article
Times cited : (21)

References (39)
  • 1
    • 2942572926 scopus 로고    scopus 로고
    • Quantifying the relationship between co-expression, co-regulation and gene function
    • D.J. Allocco, I.S. Kohane, and A.J. Butte Quantifying the relationship between co-expression, co-regulation and gene function BMC Bioinformatics 5 2004 18
    • (2004) BMC Bioinformatics , vol.5 , pp. 18
    • Allocco, D.J.1    Kohane, I.S.2    Butte, A.J.3
  • 2
    • 25844433114 scopus 로고    scopus 로고
    • Gene expression profiling in single cells from the pancreatic islets of Langerhans reveals lognormal distribution of mRNA levels
    • M. Bengtsson, A. Ståhlberg, P. Rorsman, and M. Kubista Gene expression profiling in single cells from the pancreatic islets of Langerhans reveals lognormal distribution of mRNA levels Genome Res. 15 2005 1388 1392
    • (2005) Genome Res. , vol.15 , pp. 1388-1392
    • Bengtsson, M.1    Ståhlberg, A.2    Rorsman, P.3    Kubista, M.4
  • 5
    • 46249088370 scopus 로고    scopus 로고
    • Lumi: A pipeline for processing Illumina microarray
    • P. Du, W.A. Kibbe, and S.M. Lin lumi: a pipeline for processing Illumina microarray Bioinformatics 24 2008 1547 1548
    • (2008) Bioinformatics , vol.24 , pp. 1547-1548
    • Du, P.1    Kibbe, W.A.2    Lin, S.M.3
  • 6
    • 0035799309 scopus 로고    scopus 로고
    • Establishment of human embryonic stem cell-transfected clones carrying a marker for undifferentiated cells
    • R. Eiges, M. Schuldiner, M. Drukker, O. Yanuka, J. Itskovitz-Eldor, and N. Benvenisty Establishment of human embryonic stem cell-transfected clones carrying a marker for undifferentiated cells Curr. Biol. 11 2001 514 518
    • (2001) Curr. Biol. , vol.11 , pp. 514-518
    • Eiges, R.1    Schuldiner, M.2    Drukker, M.3    Yanuka, O.4    Itskovitz-Eldor, J.5    Benvenisty, N.6
  • 9
    • 84886615682 scopus 로고    scopus 로고
    • The impact of gene expression variation on the robustness and evolvability of a developmental gene regulatory network
    • D.A. Garfield, D.E. Runcie, C.C. Babbitt, R. Haygood, W.J. Nielsen, and G.A. Wray The impact of gene expression variation on the robustness and evolvability of a developmental gene regulatory network PLoS Biol. 11 2013 e1001696
    • (2013) PLoS Biol. , vol.11 , pp. 1001696
    • Garfield, D.A.1    Runcie, D.E.2    Babbitt, C.C.3    Haygood, R.4    Nielsen, W.J.5    Wray, G.A.6
  • 10
    • 53049092465 scopus 로고    scopus 로고
    • Dynamic equilibrium and heterogeneity of mouse pluripotent stem cells with distinct functional and epigenetic states
    • K. Hayashi, S.M. Lopes, F. Tang, and M.A. Surani Dynamic equilibrium and heterogeneity of mouse pluripotent stem cells with distinct functional and epigenetic states Cell Stem Cell 3 2008 391 401
    • (2008) Cell Stem Cell , vol.3 , pp. 391-401
    • Hayashi, K.1    Lopes, S.M.2    Tang, F.3    Surani, M.A.4
  • 11
    • 70450193138 scopus 로고    scopus 로고
    • A continuum of cell states spans pluripotency and lineage commitment in human embryonic stem cells
    • S.R. Hough, A.L. Laslett, S.B. Grimmond, G. Kolle, and M.F. Pera A continuum of cell states spans pluripotency and lineage commitment in human embryonic stem cells PLoS ONE 4 2009 e7708
    • (2009) PLoS ONE , vol.4 , pp. 7708
    • Hough, S.R.1    Laslett, A.L.2    Grimmond, S.B.3    Kolle, G.4    Pera, M.F.5
  • 12
    • 34248199004 scopus 로고    scopus 로고
    • Bifurcation dynamics in lineage-commitment in bipotent progenitor cells
    • S. Huang, Y.P. Guo, G. May, and T. Enver Bifurcation dynamics in lineage-commitment in bipotent progenitor cells Dev. Biol. 305 2007 695 713
    • (2007) Dev. Biol. , vol.305 , pp. 695-713
    • Huang, S.1    Guo, Y.P.2    May, G.3    Enver, T.4
  • 13
    • 62549089350 scopus 로고    scopus 로고
    • Using cell fate attractors to uncover transcriptional regulation of HL60 neutrophil differentiation
    • A.C. Huang, L. Hu, S.A. Kauffman, W. Zhang, and I. Shmulevich Using cell fate attractors to uncover transcriptional regulation of HL60 neutrophil differentiation BMC Syst. Biol. 3 2009 20
    • (2009) BMC Syst. Biol. , vol.3 , pp. 20
    • Huang, A.C.1    Hu, L.2    Kauffman, S.A.3    Zhang, W.4    Shmulevich, I.5
  • 15
    • 0037805576 scopus 로고    scopus 로고
    • The KEGG database
    • discussion 101-103, 119-128, 244-252
    • M. Kanehisa The KEGG database Novartis Found. Symp. 247 2002 91 101 discussion 101-103, 119-128, 244-252
    • (2002) Novartis Found. Symp. , vol.247 , pp. 91-101
    • Kanehisa, M.1
  • 17
    • 7644238181 scopus 로고    scopus 로고
    • Biological robustness
    • H. Kitano Biological robustness Nat. Rev. Genet. 5 2004 826 837
    • (2004) Nat. Rev. Genet. , vol.5 , pp. 826-837
    • Kitano, H.1
  • 18
    • 70350241660 scopus 로고    scopus 로고
    • Identification of human embryonic stem cell surface markers by combined membrane-polysome translation state array analysis and immunotranscriptional profiling
    • G. Kolle, M. Ho, Q. Zhou, H.S. Chy, K. Krishnan, N. Cloonan, I. Bertoncello, A.L. Laslett, and S.M. Grimmond Identification of human embryonic stem cell surface markers by combined membrane-polysome translation state array analysis and immunotranscriptional profiling Stem Cells 27 2009 2446 2456
    • (2009) Stem Cells , vol.27 , pp. 2446-2456
    • Kolle, G.1    Ho, M.2    Zhou, Q.3    Chy, H.S.4    Krishnan, K.5    Cloonan, N.6    Bertoncello, I.7    Laslett, A.L.8    Grimmond, S.M.9
  • 19
    • 83055182013 scopus 로고    scopus 로고
    • Deep-transcriptome and ribonome sequencing redefines the molecular networks of pluripotency and the extracellular space in human embryonic stem cells
    • G. Kolle, J.L. Shepherd, B. Gardiner, K.S. Kassahn, N. Cloonan, D.L.A. Wood, E. Nourbakhsh, D.F. Taylor, S. Wani, and H.S. Chy et al. Deep-transcriptome and ribonome sequencing redefines the molecular networks of pluripotency and the extracellular space in human embryonic stem cells Genome Res. 21 2011 2014 2025
    • (2011) Genome Res. , vol.21 , pp. 2014-2025
    • Kolle, G.1    Shepherd, J.L.2    Gardiner, B.3    Kassahn, K.S.4    Cloonan, N.5    Wood, D.L.A.6    Nourbakhsh, E.7    Taylor, D.F.8    Wani, S.9    Chy, H.S.10
  • 20
    • 42949131308 scopus 로고    scopus 로고
    • Selection to minimise noise in living systems and its implications for the evolution of gene expression
    • B. Lehner Selection to minimise noise in living systems and its implications for the evolution of gene expression Mol. Syst. Biol. 4 2008 170
    • (2008) Mol. Syst. Biol. , vol.4 , pp. 170
    • Lehner, B.1
  • 21
    • 84881171093 scopus 로고    scopus 로고
    • Statistical mechanics of pluripotency
    • B.D. MacArthur, and I.R. Lemischka Statistical mechanics of pluripotency Cell 154 2013 484 489
    • (2013) Cell , vol.154 , pp. 484-489
    • Macarthur, B.D.1    Lemischka, I.R.2
  • 22
    • 80054119877 scopus 로고    scopus 로고
    • Attract: A method for identifying core pathways that define cellular phenotypes
    • J.C. Mar, N.A. Matigian, J. Quackenbush, and C.A. Wells attract: a method for identifying core pathways that define cellular phenotypes PLoS ONE 6 2011 e25445
    • (2011) PLoS ONE , vol.6 , pp. 25445
    • Mar, J.C.1    Matigian, N.A.2    Quackenbush, J.3    Wells, C.A.4
  • 23
    • 79954521574 scopus 로고    scopus 로고
    • Defining an informativeness metric for clustering gene expression data
    • J.C. Mar, C.A. Wells, and J. Quackenbush Defining an informativeness metric for clustering gene expression data Bioinformatics 27 2011 1094 1100
    • (2011) Bioinformatics , vol.27 , pp. 1094-1100
    • Mar, J.C.1    Wells, C.A.2    Quackenbush, J.3
  • 26
    • 33846845067 scopus 로고    scopus 로고
    • Secreted frizzled related protein 2 (Sfrp2) is the key Akt-mesenchymal stem cell-released paracrine factor mediating myocardial survival and repair
    • M. Mirotsou, Z. Zhang, A. Deb, L. Zhang, M. Gnecchi, N. Noiseux, H. Mu, A. Pachori, and V. Dzau Secreted frizzled related protein 2 (Sfrp2) is the key Akt-mesenchymal stem cell-released paracrine factor mediating myocardial survival and repair Proc. Natl. Acad. Sci. USA 104 2007 1643 1648
    • (2007) Proc. Natl. Acad. Sci. USA , vol.104 , pp. 1643-1648
    • Mirotsou, M.1    Zhang, Z.2    Deb, A.3    Zhang, L.4    Gnecchi, M.5    Noiseux, N.6    Mu, H.7    Pachori, A.8    Dzau, V.9
  • 28
    • 77952858910 scopus 로고    scopus 로고
    • Culture of human pluripotent stem cells using completely defined conditions on a recombinant E-cadherin substratum
    • M. Nagaoka, K. Si-Tayeb, T. Akaike, and S.A. Duncan Culture of human pluripotent stem cells using completely defined conditions on a recombinant E-cadherin substratum BMC Dev. Biol. 10 2010 60
    • (2010) BMC Dev. Biol. , vol.10 , pp. 60
    • Nagaoka, M.1    Si-Tayeb, K.2    Akaike, T.3    Duncan, S.A.4
  • 29
    • 0037472928 scopus 로고    scopus 로고
    • Genomic function: Rate of evolution and gene dispensability
    • discussion 497-498
    • C. Pál, B. Papp, and L.D. Hurst Genomic function: rate of evolution and gene dispensability Nature 421 2003 496 497 discussion 497-498
    • (2003) Nature , vol.421 , pp. 496-497
    • Pál, C.1    Papp, B.2    Hurst, L.D.3
  • 30
    • 77952018749 scopus 로고    scopus 로고
    • Functional analysis of the Cdk7.cyclin H.Mat1 complex in mouse embryonic stem cells and embryos
    • S.A. Patel, and M.C. Simon Functional analysis of the Cdk7.cyclin H.Mat1 complex in mouse embryonic stem cells and embryos J. Biol. Chem. 285 2010 15587 15598
    • (2010) J. Biol. Chem. , vol.285 , pp. 15587-15598
    • Patel, S.A.1    Simon, M.C.2
  • 31
    • 77249114260 scopus 로고    scopus 로고
    • Variability in gene expression underlies incomplete penetrance
    • A. Raj, S.A. Rifkin, E. Andersen, and A. van Oudenaarden Variability in gene expression underlies incomplete penetrance Nature 463 2010 913 918
    • (2010) Nature , vol.463 , pp. 913-918
    • Raj, A.1    Rifkin, S.A.2    Andersen, E.3    Van Oudenaarden, A.4
  • 33
    • 84890984246 scopus 로고    scopus 로고
    • Cell-cycle control of developmentally regulated transcription factors accounts for heterogeneity in human pluripotent cells
    • A.M. Singh, J. Chappell, R. Trost, L. Lin, T. Wang, J. Tang, B.K. Matlock, K.P. Weller, H. Wu, and S. Zhao et al. Cell-cycle control of developmentally regulated transcription factors accounts for heterogeneity in human pluripotent cells Stem Cell Rev. 1 2013 532 544
    • (2013) Stem Cell Rev. , vol.1 , pp. 532-544
    • Singh, A.M.1    Chappell, J.2    Trost, R.3    Lin, L.4    Wang, T.5    Tang, J.6    Matlock, B.K.7    Weller, K.P.8    Wu, H.9    Zhao, S.10
  • 34
    • 84893023300 scopus 로고    scopus 로고
    • Nanog heterogeneity: Tilting at windmills?
    • A. Smith Nanog heterogeneity: tilting at windmills? Cell Stem Cell 13 2013 6 7
    • (2013) Cell Stem Cell , vol.13 , pp. 6-7
    • Smith, A.1
  • 35
    • 33745000256 scopus 로고    scopus 로고
    • Genetic regulatory networks programming hematopoietic stem cells and erythroid lineage specification
    • G. Swiers, R. Patient, and M. Loose Genetic regulatory networks programming hematopoietic stem cells and erythroid lineage specification Dev. Biol. 294 2006 525 540
    • (2006) Dev. Biol. , vol.294 , pp. 525-540
    • Swiers, G.1    Patient, R.2    Loose, M.3
  • 38
    • 77952360137 scopus 로고    scopus 로고
    • Revealing a core signaling regulatory mechanism for pluripotent stem cell survival and self-renewal by small molecules
    • Y. Xu, X. Zhu, H.S. Hahm, W. Wei, E. Hao, A. Hayek, and S. Ding Revealing a core signaling regulatory mechanism for pluripotent stem cell survival and self-renewal by small molecules Proc. Natl. Acad. Sci. USA 107 2010 8129 8134
    • (2010) Proc. Natl. Acad. Sci. USA , vol.107 , pp. 8129-8134
    • Xu, Y.1    Zhu, X.2    Hahm, H.S.3    Wei, W.4    Hao, E.5    Hayek, A.6    Ding, S.7
  • 39
    • 84874788156 scopus 로고    scopus 로고
    • The zinc finger transcription factor Ovol2 acts downstream of the bone morphogenetic protein pathway to regulate the cell fate decision between neuroectoderm and mesendoderm
    • T. Zhang, Q. Zhu, Z. Xie, Y. Chen, Y. Qiao, L. Li, and N. Jing The zinc finger transcription factor Ovol2 acts downstream of the bone morphogenetic protein pathway to regulate the cell fate decision between neuroectoderm and mesendoderm J. Biol. Chem. 288 2013 6166 6177
    • (2013) J. Biol. Chem. , vol.288 , pp. 6166-6177
    • Zhang, T.1    Zhu, Q.2    Xie, Z.3    Chen, Y.4    Qiao, Y.5    Li, L.6    Jing, N.7


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.