메뉴 건너뛰기




Volumn 24, Issue 3, 2012, Pages 350-358

Duel of the fates: The role of transcriptional circuits and noise in CD4+ cells

Author keywords

[No Author keywords available]

Indexed keywords

INTERLEUKIN 4; INTERLEUKIN 5; RNA POLYMERASE II; STAT6 PROTEIN; TRANSCRIPTION FACTOR GATA 3; TRANSCRIPTION FACTOR RUNX3; TRANSCRIPTION FACTOR T BET;

EID: 84861985061     PISSN: 09550674     EISSN: 18790410     Source Type: Journal    
DOI: 10.1016/j.ceb.2012.03.007     Document Type: Review
Times cited : (12)

References (66)
  • 1
    • 33747195353 scopus 로고    scopus 로고
    • Induction of pluripotent stem cells from mouse embryonic and adult fibroblast cultures by defined factors
    • Takahashi K., Yamanaka S. Induction of pluripotent stem cells from mouse embryonic and adult fibroblast cultures by defined factors. Cell 2006, 126:663-676.
    • (2006) Cell , vol.126 , pp. 663-676
    • Takahashi, K.1    Yamanaka, S.2
  • 2
    • 77952313777 scopus 로고    scopus 로고
    • Differentiation of effector CD4 T cell populations (*)
    • Zhu J., Yamane H., Paul W.E. Differentiation of effector CD4 T cell populations (*). Annu Rev Immunol 2010, 28:445-489.
    • (2010) Annu Rev Immunol , vol.28 , pp. 445-489
    • Zhu, J.1    Yamane, H.2    Paul, W.E.3
  • 4
    • 84857199176 scopus 로고    scopus 로고
    • Dissecting ensemble networks in ES cell populations reveals micro-heterogeneity underlying pluripotency
    • Trott J., Surani A., Babu M.M., Martinez-Arias A. Dissecting ensemble networks in ES cell populations reveals micro-heterogeneity underlying pluripotency. Mol BioSyst 2012, 8:744-752.
    • (2012) Mol BioSyst , vol.8 , pp. 744-752
    • Trott, J.1    Surani, A.2    Babu, M.M.3    Martinez-Arias, A.4
  • 5
    • 0036790975 scopus 로고    scopus 로고
    • Intrinsic and extrinsic contributions to stochasticity in gene expression
    • Swain P.S., Elowitz M.B., Siggia E.D. Intrinsic and extrinsic contributions to stochasticity in gene expression. Proc Natl Acad Sci U S A 2002, 99:12795-12800.
    • (2002) Proc Natl Acad Sci U S A , vol.99 , pp. 12795-12800
    • Swain, P.S.1    Elowitz, M.B.2    Siggia, E.D.3
  • 6
    • 80052809114 scopus 로고    scopus 로고
    • Varying virulence: epigenetic control of expression noise and disease processes
    • Miller-Jensen K., Dey S.S., Schaffer D.V., Arkin A.P. Varying virulence: epigenetic control of expression noise and disease processes. Trends Biotechnol 2011, 29:517-525.
    • (2011) Trends Biotechnol , vol.29 , pp. 517-525
    • Miller-Jensen, K.1    Dey, S.S.2    Schaffer, D.V.3    Arkin, A.P.4
  • 7
    • 77955155615 scopus 로고    scopus 로고
    • Noise and robustness in prokaryotic regulatory networks
    • Silva-Rocha R., de Lorenzo V. Noise and robustness in prokaryotic regulatory networks. Annu Rev Microbiol 2010, 64:257-275.
    • (2010) Annu Rev Microbiol , vol.64 , pp. 257-275
    • Silva-Rocha, R.1    de Lorenzo, V.2
  • 8
    • 67650319009 scopus 로고    scopus 로고
    • Single-molecule approaches to stochastic gene expression
    • Raj A., van Oudenaarden A. Single-molecule approaches to stochastic gene expression. Annu Rev Biophys 2009, 38:255-270.
    • (2009) Annu Rev Biophys , vol.38 , pp. 255-270
    • Raj, A.1    van Oudenaarden, A.2
  • 11
    • 0142027814 scopus 로고    scopus 로고
    • Structure and function of the feed-forward loop network motif
    • Mangan S., Alon U. Structure and function of the feed-forward loop network motif. Proc Natl Acad Sci U S A 2003, 100:11980-11985.
    • (2003) Proc Natl Acad Sci U S A , vol.100 , pp. 11980-11985
    • Mangan, S.1    Alon, U.2
  • 12
    • 79951939643 scopus 로고    scopus 로고
    • Structural discrimination of robustness in transcriptional feedforward loops for pattern formation
    • Rodrigo G., Elena S.F. Structural discrimination of robustness in transcriptional feedforward loops for pattern formation. PLoS One 2011, 6:e16904.
    • (2011) PLoS One , vol.6
    • Rodrigo, G.1    Elena, S.F.2
  • 13
    • 79955879494 scopus 로고    scopus 로고
    • Controllability of complex networks
    • Liu Y.Y., Slotine J.J., Barabasi A.L. Controllability of complex networks. Nature 2011, 473:167-173.
    • (2011) Nature , vol.473 , pp. 167-173
    • Liu, Y.Y.1    Slotine, J.J.2    Barabasi, A.L.3
  • 14
    • 84861481934 scopus 로고    scopus 로고
    • Few inputs can reprogram biological networks
    • (discussion E4-5)
    • Muller F.J., Schuppert A. Few inputs can reprogram biological networks. Nature 2011, 478:E4. (discussion E4-5).
    • (2011) Nature , vol.478
    • Muller, F.J.1    Schuppert, A.2
  • 16
    • 58249088751 scopus 로고    scopus 로고
    • MicroRNAs: target recognition and regulatory functions
    • Bartel D.P. MicroRNAs: target recognition and regulatory functions. Cell 2009, 136:215-233.
    • (2009) Cell , vol.136 , pp. 215-233
    • Bartel, D.P.1
  • 17
    • 33847047461 scopus 로고    scopus 로고
    • Epigenetics: a landscape takes shape
    • Goldberg A.D., Allis C.D., Bernstein E. Epigenetics: a landscape takes shape. Cell 2007, 128:635-638.
    • (2007) Cell , vol.128 , pp. 635-638
    • Goldberg, A.D.1    Allis, C.D.2    Bernstein, E.3
  • 18
    • 77954928774 scopus 로고    scopus 로고
    • Maintaining cell identity through global control of genomic organization
    • Natoli G. Maintaining cell identity through global control of genomic organization. Immunity 2010, 33:12-24.
    • (2010) Immunity , vol.33 , pp. 12-24
    • Natoli, G.1
  • 19
    • 58849092225 scopus 로고    scopus 로고
    • Epigenetic control of T-helper-cell differentiation
    • Wilson C.B., Rowell E., Sekimata M. Epigenetic control of T-helper-cell differentiation. Nat Rev Immunol 2009, 9:91-105.
    • (2009) Nat Rev Immunol , vol.9 , pp. 91-105
    • Wilson, C.B.1    Rowell, E.2    Sekimata, M.3
  • 20
    • 0030764961 scopus 로고    scopus 로고
    • Transcription factor GATA-3 is differentially expressed in murine Th1 and Th2 cells and controls Th2-specific expression of the interleukin-5 gene
    • Zhang D.H., Cohn L., Ray P., Bottomly K., Ray A. Transcription factor GATA-3 is differentially expressed in murine Th1 and Th2 cells and controls Th2-specific expression of the interleukin-5 gene. J Biol Chem 1997, 272:21597-21603.
    • (1997) J Biol Chem , vol.272 , pp. 21597-21603
    • Zhang, D.H.1    Cohn, L.2    Ray, P.3    Bottomly, K.4    Ray, A.5
  • 21
    • 0030810155 scopus 로고    scopus 로고
    • The transcription factor GATA-3 is necessary and sufficient for Th2 cytokine gene expression in CD4 T cells
    • Zheng W., Flavell R.A. The transcription factor GATA-3 is necessary and sufficient for Th2 cytokine gene expression in CD4 T cells. Cell 1997, 89:587-596.
    • (1997) Cell , vol.89 , pp. 587-596
    • Zheng, W.1    Flavell, R.A.2
  • 22
    • 58149214356 scopus 로고    scopus 로고
    • Global mapping of H3K4me3 and H3K27me3 reveals specificity and plasticity in lineage fate determination of differentiating CD4+ T cells
    • Wei G., Wei L., Zhu J., Zang C., Hu-Li J., Yao Z., Cui K., Kanno Y., Roh T.Y., Watford W.T., et al. Global mapping of H3K4me3 and H3K27me3 reveals specificity and plasticity in lineage fate determination of differentiating CD4+ T cells. Immunity 2009, 30:155-167.
    • (2009) Immunity , vol.30 , pp. 155-167
    • Wei, G.1    Wei, L.2    Zhu, J.3    Zang, C.4    Hu-Li, J.5    Yao, Z.6    Cui, K.7    Kanno, Y.8    Roh, T.Y.9    Watford, W.T.10
  • 23
    • 77954948735 scopus 로고    scopus 로고
    • Effector T cell plasticity: flexibility in the face of changing circumstances
    • Murphy K.M., Stockinger B. Effector T cell plasticity: flexibility in the face of changing circumstances. Nat Immunol 2010, 11:674-680.
    • (2010) Nat Immunol , vol.11 , pp. 674-680
    • Murphy, K.M.1    Stockinger, B.2
  • 26
    • 0032482996 scopus 로고    scopus 로고
    • Cell division regulates the T cell cytokine repertoire, revealing a mechanism underlying immune class regulation
    • Gett A.V., Hodgkin P.D. Cell division regulates the T cell cytokine repertoire, revealing a mechanism underlying immune class regulation. Proc Natl Acad Sci U S A 1998, 95:9488-9493.
    • (1998) Proc Natl Acad Sci U S A , vol.95 , pp. 9488-9493
    • Gett, A.V.1    Hodgkin, P.D.2
  • 27
    • 79952638264 scopus 로고    scopus 로고
    • Cellular decision making and biological noise: from microbes to mammals
    • Balazsi G., van Oudenaarden A., Collins J.J. Cellular decision making and biological noise: from microbes to mammals. Cell 2011, 144:910-925.
    • (2011) Cell , vol.144 , pp. 910-925
    • Balazsi, G.1    van Oudenaarden, A.2    Collins, J.J.3
  • 28
  • 31
    • 79954906546 scopus 로고    scopus 로고
    • Asymmetric proteasome segregation as a mechanism for unequal partitioning of the transcription factor T-bet during T lymphocyte division
    • Chang J., Ciocca M., Kinjyo I., Palanivel V., McClurkin C., Dejong C., Mooney E., Kim J., Steinel N., Oliaro J., et al. Asymmetric proteasome segregation as a mechanism for unequal partitioning of the transcription factor T-bet during T lymphocyte division. Immunity 2011, 34:492-504.
    • (2011) Immunity , vol.34 , pp. 492-504
    • Chang, J.1    Ciocca, M.2    Kinjyo, I.3    Palanivel, V.4    McClurkin, C.5    Dejong, C.6    Mooney, E.7    Kim, J.8    Steinel, N.9    Oliaro, J.10
  • 32
    • 77956528790 scopus 로고    scopus 로고
    • Fundamental limits on the suppression of molecular fluctuations
    • Lestas I., Vinnicombe G., Paulsson J. Fundamental limits on the suppression of molecular fluctuations. Nature 2010, 467:174-178.
    • (2010) Nature , vol.467 , pp. 174-178
    • Lestas, I.1    Vinnicombe, G.2    Paulsson, J.3
  • 33
    • 41349119880 scopus 로고    scopus 로고
    • Stochastic switching as a survival strategy in fluctuating environments
    • Acar M., Mettetal J.T., van Oudenaarden A. Stochastic switching as a survival strategy in fluctuating environments. Nat Genet 2008, 40:471-475.
    • (2008) Nat Genet , vol.40 , pp. 471-475
    • Acar, M.1    Mettetal, J.T.2    van Oudenaarden, A.3
  • 34
    • 70350336588 scopus 로고    scopus 로고
    • Architecture-dependent noise discriminates functionally analogous differentiation circuits
    • Cagatay T., Turcotte M., Elowitz M.B., Garcia-Ojalvo J., Suel G.M. Architecture-dependent noise discriminates functionally analogous differentiation circuits. Cell 2009, 139:512-522.
    • (2009) Cell , vol.139 , pp. 512-522
    • Cagatay, T.1    Turcotte, M.2    Elowitz, M.B.3    Garcia-Ojalvo, J.4    Suel, G.M.5
  • 36
    • 79952302623 scopus 로고    scopus 로고
    • The role of incoherent microRNA-mediated feedforward loops in noise buffering
    • Osella M., Bosia C., Cora D., Caselle M. The role of incoherent microRNA-mediated feedforward loops in noise buffering. PLoS Comput Biol 2011, 7:e1001101.
    • (2011) PLoS Comput Biol , vol.7
    • Osella, M.1    Bosia, C.2    Cora, D.3    Caselle, M.4
  • 37
    • 24144451839 scopus 로고    scopus 로고
    • Noise characteristics of feed forward loops
    • Ghosh B., Karmakar R., Bose I. Noise characteristics of feed forward loops. Phys Biol 2005, 2:36-45.
    • (2005) Phys Biol , vol.2 , pp. 36-45
    • Ghosh, B.1    Karmakar, R.2    Bose, I.3
  • 38
    • 77955830290 scopus 로고    scopus 로고
    • Biological role of noise encoded in a genetic network motif
    • Kittisopikul M., Suel G.M. Biological role of noise encoded in a genetic network motif. Proc Natl Acad Sci U S A 2010, 107:13300-13305.
    • (2010) Proc Natl Acad Sci U S A , vol.107 , pp. 13300-13305
    • Kittisopikul, M.1    Suel, G.M.2
  • 41
    • 0017220998 scopus 로고
    • The expression of three abundance classes of messenger RNA in mouse tissues
    • Hastie N.D., Bishop J.O. The expression of three abundance classes of messenger RNA in mouse tissues. Cell 1976, 9:761-774.
    • (1976) Cell , vol.9 , pp. 761-774
    • Hastie, N.D.1    Bishop, J.O.2
  • 43
    • 77954817961 scopus 로고    scopus 로고
    • Genomic neighbourhood and the regulation of gene expression
    • De S., Babu M.M. Genomic neighbourhood and the regulation of gene expression. Curr Opin Cell Biol 2010, 22:326-333.
    • (2010) Curr Opin Cell Biol , vol.22 , pp. 326-333
    • De, S.1    Babu, M.M.2
  • 45
    • 33750488431 scopus 로고    scopus 로고
    • The genomic landscape of histone modifications in human T cells
    • Roh T., Cuddapah S., Cui K., Zhao K. The genomic landscape of histone modifications in human T cells. Proc Natl Acad Sci U S A 2006, 103:15782-15787.
    • (2006) Proc Natl Acad Sci U S A , vol.103 , pp. 15782-15787
    • Roh, T.1    Cuddapah, S.2    Cui, K.3    Zhao, K.4
  • 50
    • 77950809943 scopus 로고    scopus 로고
    • Monovalent and unpoised status of most genes in undifferentiated cell-enriched Drosophila testis
    • Gan Q., Schones D., Ho Eun S., Wei G., Cui K., Zhao K., Chen X. Monovalent and unpoised status of most genes in undifferentiated cell-enriched Drosophila testis. Genome Biol 2010, 11:R42.
    • (2010) Genome Biol , vol.11
    • Gan, Q.1    Schones, D.2    Ho Eun, S.3    Wei, G.4    Cui, K.5    Zhao, K.6    Chen, X.7
  • 53
    • 1342265727 scopus 로고    scopus 로고
    • Probabilistic regulation of IL-4 production in Th2 cells: accessibility at the Il4 locus
    • Guo L., Hu-Li J., Paul W.E. Probabilistic regulation of IL-4 production in Th2 cells: accessibility at the Il4 locus. Immunity 2004, 20:193-203.
    • (2004) Immunity , vol.20 , pp. 193-203
    • Guo, L.1    Hu-Li, J.2    Paul, W.E.3
  • 54
    • 50149090966 scopus 로고    scopus 로고
    • Variability and robustness in T cell activation from regulated heterogeneity in protein levels
    • Feinerman O., Veiga J., Dorfman J.R., Germain R.N., Altan-Bonnet G. Variability and robustness in T cell activation from regulated heterogeneity in protein levels. Science 2008, 321:1081-1084.
    • (2008) Science , vol.321 , pp. 1081-1084
    • Feinerman, O.1    Veiga, J.2    Dorfman, J.R.3    Germain, R.N.4    Altan-Bonnet, G.5
  • 55
    • 78049424847 scopus 로고    scopus 로고
    • Diversity and plasticity of Th cell types predicted from regulatory network modelling
    • Naldi A., Carneiro J., Chaouiya C., Thieffry D. Diversity and plasticity of Th cell types predicted from regulatory network modelling. PLoS Comput Biol 2010, 6:e1000912.
    • (2010) PLoS Comput Biol , vol.6
    • Naldi, A.1    Carneiro, J.2    Chaouiya, C.3    Thieffry, D.4
  • 56
    • 33846489173 scopus 로고    scopus 로고
    • Transcription factors T-bet and Runx3 cooperate to activate Ifng and silence Il4 in T helper type 1 cells
    • Djuretic I.M., Levanon D., Negreanu V., Groner Y., Rao A., Ansel K.M. Transcription factors T-bet and Runx3 cooperate to activate Ifng and silence Il4 in T helper type 1 cells. Nat Immunol 2007, 8:145-153.
    • (2007) Nat Immunol , vol.8 , pp. 145-153
    • Djuretic, I.M.1    Levanon, D.2    Negreanu, V.3    Groner, Y.4    Rao, A.5    Ansel, K.M.6
  • 59
    • 33750465872 scopus 로고    scopus 로고
    • SATB1 packages densely looped, transcriptionally active chromatin for coordinated expression of cytokine genes
    • Cai S., Lee C.C., Kohwi-Shigematsu T. SATB1 packages densely looped, transcriptionally active chromatin for coordinated expression of cytokine genes. Nat Genet 2006, 38:1278-1288.
    • (2006) Nat Genet , vol.38 , pp. 1278-1288
    • Cai, S.1    Lee, C.C.2    Kohwi-Shigematsu, T.3
  • 60
    • 77953917067 scopus 로고    scopus 로고
    • Discrete roles of STAT4 and STAT6 transcription factors in tuning epigenetic modifications and transcription during T helper cell differentiation
    • Wei L., Vahedi G., Sun H., Watford W., Takatori H., Ramos H., Takahashi H., Liang J., Gutierrez-Cruz G., Zang C., et al. Discrete roles of STAT4 and STAT6 transcription factors in tuning epigenetic modifications and transcription during T helper cell differentiation. Immunity 2010, 32:840-851.
    • (2010) Immunity , vol.32 , pp. 840-851
    • Wei, L.1    Vahedi, G.2    Sun, H.3    Watford, W.4    Takatori, H.5    Ramos, H.6    Takahashi, H.7    Liang, J.8    Gutierrez-Cruz, G.9    Zang, C.10
  • 61
    • 0029795585 scopus 로고    scopus 로고
    • Interleukin-4-induced STAT6 recognizes and activates a target site in the promoter of the interleukin-4 receptor gene
    • Kotanides H., Reich N. Interleukin-4-induced STAT6 recognizes and activates a target site in the promoter of the interleukin-4 receptor gene. J Biol Chem 1996, 271:25555-25561.
    • (1996) J Biol Chem , vol.271 , pp. 25555-25561
    • Kotanides, H.1    Reich, N.2
  • 62
    • 82255175259 scopus 로고    scopus 로고
    • Strategies to discover regulatory circuits of the mammalian immune system
    • Amit I., Regev A., Hacohen N. Strategies to discover regulatory circuits of the mammalian immune system. Nat Rev Immunol 2011, 11:873-880.
    • (2011) Nat Rev Immunol , vol.11 , pp. 873-880
    • Amit, I.1    Regev, A.2    Hacohen, N.3
  • 63
    • 65449136284 scopus 로고    scopus 로고
    • TopHat: discovering splice junctions with RNA-Seq
    • Trapnell C., Pachter L., Salzberg S.L. TopHat: discovering splice junctions with RNA-Seq. Bioinformatics 2009, 25:1105-1111.
    • (2009) Bioinformatics , vol.25 , pp. 1105-1111
    • Trapnell, C.1    Pachter, L.2    Salzberg, S.L.3
  • 64
    • 0036947892 scopus 로고    scopus 로고
    • Robust estimators for expression analysis
    • Hubbell E., Liu W.M., Mei R. Robust estimators for expression analysis. Bioinformatics 2002, 18:1585-1592.
    • (2002) Bioinformatics , vol.18 , pp. 1585-1592
    • Hubbell, E.1    Liu, W.M.2    Mei, R.3
  • 65
    • 4544341015 scopus 로고    scopus 로고
    • Linear models and empirical Bayes methods for assessing differential expression in microarray experiments
    • Article3
    • Smyth G.K. Linear models and empirical Bayes methods for assessing differential expression in microarray experiments. Stat Appl Genet Mol Biol 2004, 3. Article3.
    • (2004) Stat Appl Genet Mol Biol , vol.3
    • Smyth, G.K.1
  • 66


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.