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Volumn 279, Issue 18, 2012, Pages 3488-3500

Multi-scale modeling of GMP differentiation based on single-cell genealogies

Author keywords

approximate Bayesian computing; branching process; differentiation; hematopoiesis; stochastic gene expression model

Indexed keywords

TRANSCRIPTION FACTOR;

EID: 84865970286     PISSN: 1742464X     EISSN: 17424658     Source Type: Journal    
DOI: 10.1111/j.1742-4658.2012.08664.x     Document Type: Conference Paper
Times cited : (18)

References (50)
  • 1
    • 39349096526 scopus 로고    scopus 로고
    • Hematopoiesis: An Evolving Paradigm for Stem Cell Biology
    • DOI 10.1016/j.cell.2008.01.025, PII S0092867408001256
    • Orkin SH, &, Zon LI, (2008) Hematopoiesis: an evolving paradigm for stem cell biology. Cell 132, 631-644. (Pubitemid 351260057)
    • (2008) Cell , vol.132 , Issue.4 , pp. 631-644
    • Orkin, S.H.1    Zon, L.I.2
  • 2
    • 84866003633 scopus 로고    scopus 로고
    • Development of macrophages and granulocytes
    • (Wickrema A. & Kee B. eds), Springer, Berlin
    • Dahl R, (2009) Development of macrophages and granulocytes. In Molecular Basis of Hematopoiesis (, Wickrema A, &, Kee B, eds), pp. 127-149. Springer, Berlin.
    • (2009) Molecular Basis of Hematopoiesis , pp. 127-149
    • Dahl, R.1
  • 3
    • 0042883985 scopus 로고    scopus 로고
    • Towards predictive models of stem cell fate
    • DOI 10.1023/A:1024866504538
    • Viswanathan S, &, Zandstra P, (2003) Towards predictive models of stem cell fate. Cytotechnology 41, 75-92. (Pubitemid 37045948)
    • (2003) Cytotechnology , vol.41 , Issue.2-3 , pp. 75-92
    • Viswanathan, S.1    Zandstra, P.W.2
  • 4
    • 77950626127 scopus 로고    scopus 로고
    • Hematopoiesis and its disorders: A systems biology approach
    • Whichard ZL, Sarkar CA, Kimmel M, &, Corey SJ, (2010) Hematopoiesis and its disorders: a systems biology approach. Blood 115, 2339-2347.
    • (2010) Blood , vol.115 , pp. 2339-2347
    • Whichard, Z.L.1    Sarkar, C.A.2    Kimmel, M.3    Corey, S.J.4
  • 5
    • 78651158197 scopus 로고
    • A stochastic model of stem cell proliferation, based on the growth of spleen colony-forming cells
    • Till JE, McCulloch EA, &, Siminovitch L, (1964) A stochastic model of stem cell proliferation, based on the growth of spleen colony-forming cells. Proc Natl Acad Sci USA 51, 29-36.
    • (1964) Proc Natl Acad Sci USA , vol.51 , pp. 29-36
    • Till, J.E.1    McCulloch, E.A.2    Siminovitch, L.3
  • 6
    • 79952336482 scopus 로고    scopus 로고
    • Multi-type branching models to describe cell differentiation programs
    • Nordon RE, Ko KH, Odell R, &, Schroeder T, (2011) Multi-type branching models to describe cell differentiation programs. J Theor Biol 277, 7-18.
    • (2011) J Theor Biol , vol.277 , pp. 7-18
    • Nordon, R.E.1    Ko, K.H.2    Odell, R.3    Schroeder, T.4
  • 7
    • 77951652342 scopus 로고    scopus 로고
    • The effect of correlations on the population dynamics of lymphocytes
    • Wellard C, Markham J, Hawkins ED, &, Hodgkin PD, (2010) The effect of correlations on the population dynamics of lymphocytes. J Theor Biol 264, 443-449.
    • (2010) J Theor Biol , vol.264 , pp. 443-449
    • Wellard, C.1    Markham, J.2    Hawkins, E.D.3    Hodgkin, P.D.4
  • 8
    • 34547232294 scopus 로고    scopus 로고
    • Lineage specification of hematopoietic stem cells: Mathematical modeling and biological implications
    • DOI 10.1634/stemcells.2007-0025
    • Glauche I, Cross M, Loeffer M, &, Roeder I, (2007) Lineage specification of hematopoietic stem cells: mathematical modeling and biological implications. Stem Cells 25, 1791-1799. (Pubitemid 47121858)
    • (2007) Stem Cells , vol.25 , Issue.7 , pp. 1791-1799
    • Glauche, I.1    Cross, M.2    Loeffler, M.3    Roeder, I.4
  • 9
    • 39649091518 scopus 로고    scopus 로고
    • Bifurcation and bistability in a model of hematopoietic regulation
    • Colijn C, &, Mackey M, (2007) Bifurcation and bistability in a model of hematopoietic regulation. SIAM J Appl Dyn Syst 6, 378-394.
    • (2007) SIAM J Appl Dyn Syst , vol.6 , pp. 378-394
    • Colijn, C.1    MacKey, M.2
  • 12
    • 80051505603 scopus 로고    scopus 로고
    • Hierarchical differentiation of myeloid progenitors is encoded in the transcription factor network
    • Krumsiek J, Marr C, Schroeder T, &, Theis FJ, (2011) Hierarchical differentiation of myeloid progenitors is encoded in the transcription factor network. PLoS ONE 6, e22649.
    • (2011) PLoS ONE , vol.6
    • Krumsiek, J.1    Marr, C.2    Schroeder, T.3    Theis, F.J.4
  • 13
    • 79957710315 scopus 로고    scopus 로고
    • Quantifying the Waddington landscape and biological paths for development and differentiation
    • Wang J, Zhang K, Xu L, &, Wang E, (2011) Quantifying the Waddington landscape and biological paths for development and differentiation. Proc Natl Acad Sci USA 108, 8257-8262.
    • (2011) Proc Natl Acad Sci USA , vol.108 , pp. 8257-8262
    • Wang, J.1    Zhang, K.2    Xu, L.3    Wang, E.4
  • 14
    • 67549090310 scopus 로고    scopus 로고
    • A bistable genetic switch which does not require high cooperativity at the promoter: A two-timescale model for the PU.1-GATA-1 interaction
    • Bokes P, King JR, &, Loose M, (2009) A bistable genetic switch which does not require high cooperativity at the promoter: a two-timescale model for the PU.1-GATA-1 interaction. Math Med Biol 26, 117-132.
    • (2009) Math Med Biol , vol.26 , pp. 117-132
    • Bokes, P.1    King, J.R.2    Loose, M.3
  • 15
    • 59149091124 scopus 로고    scopus 로고
    • Computational modeling of the hematopoietic erythroid-myeloid switch reveals insights into cooperativity, priming, and irreversibility
    • Chickarmane V, Enver T, &, Peterson C, (2009) Computational modeling of the hematopoietic erythroid-myeloid switch reveals insights into cooperativity, priming, and irreversibility. PLoS Comput Biol 5, e1000268.
    • (2009) PLoS Comput Biol , vol.5
    • Chickarmane, V.1    Enver, T.2    Peterson, C.3
  • 16
    • 84855644327 scopus 로고    scopus 로고
    • Mathematical modelling of stem cell differentiation: The PU.1-GATA-1 interaction
    • Duff C, Smith-Miles K, Lopes L, &, Tian T, (2012) Mathematical modelling of stem cell differentiation: the PU.1-GATA-1 interaction. J Math Biol 64, 449-468.
    • (2012) J Math Biol , vol.64 , pp. 449-468
    • Duff, C.1    Smith-Miles, K.2    Lopes, L.3    Tian, T.4
  • 17
    • 34248199004 scopus 로고    scopus 로고
    • Bifurcation dynamics in lineage-commitment in bipotent progenitor cells
    • DOI 10.1016/j.ydbio.2007.02.036, PII S0012160607001674
    • Huang S, Guo YP, May G, &, Enver T, (2007) Bifurcation dynamics in lineage-commitment in bipotent progenitor cells. Dev Biol 305, 695-713. (Pubitemid 46705410)
    • (2007) Developmental Biology , vol.305 , Issue.2 , pp. 695-713
    • Huang, S.1    Guo, Y.-P.2    May, G.3    Enver, T.4
  • 18
    • 33746040437 scopus 로고    scopus 로고
    • Towards an understanding of lineage specification in hematopoietic stem cells: A mathematical model for the interaction of transcription factors GATA-1 and PU.1
    • DOI 10.1016/j.jtbi.2006.01.021, PII S0022519306000348
    • Roeder I, &, Glauche I, (2006) Towards an understanding of lineage specification in hematopoietic stem cells: a mathematical model for the interaction of transcription factors GATA-1 and PU.1. J Theor Biol 241, 852-865. (Pubitemid 44080793)
    • (2006) Journal of Theoretical Biology , vol.241 , Issue.4 , pp. 852-865
    • Roeder, I.1    Glauche, I.2
  • 19
    • 0034696445 scopus 로고    scopus 로고
    • How to make a biological switch
    • DOI 10.1006/jtbi.2000.1068
    • Cherry JL, &, Adler FR, (2000) How to make a biological switch. J Theor Biol 203, 117-133. (Pubitemid 30662944)
    • (2000) Journal of Theoretical Biology , vol.203 , Issue.2 , pp. 117-133
    • Cherry, J.L.1    Adler, F.R.2
  • 21
    • 2342464752 scopus 로고    scopus 로고
    • Enhancement of the stability of genetic switches by overlapping upstream regulatory domains
    • Warren P, &, Ten Wolde P, (2004) Enhancement of the stability of genetic switches by overlapping upstream regulatory domains. Phys Rev Lett 92, 128101.
    • (2004) Phys Rev Lett , vol.92 , pp. 128101
    • Warren, P.1    Ten Wolde, P.2
  • 23
    • 21244447564 scopus 로고    scopus 로고
    • Self-consistent proteomic field theory of stochastic gene switches
    • DOI 10.1529/biophysj.104.050666
    • Walczak A, Sasai M, &, Wolynes P, (2005) Self-consistent proteomic field theory of stochastic gene switches. Biophys J 88, 828-850. (Pubitemid 40975922)
    • (2005) Biophysical Journal , vol.88 , Issue.2 , pp. 828-850
    • Walczak, A.M.1    Sasai, M.2    Wolynes, P.G.3
  • 24
    • 34548533820 scopus 로고    scopus 로고
    • Designing sequential transcription logic: A simple genetic circuit for conditional memory
    • DOI 10.1007/s11693-007-9006-8
    • Fritz G, Buchler N, Hwa T, &, Gerland U, (2007) Designing sequential transcription logic: a simple genetic circuit for conditional memory. Syst Synth Biol 1, 89-98. (Pubitemid 47384167)
    • (2007) Systems and Synthetic Biology , vol.1 , Issue.2 , pp. 89-98
    • Fritz, G.1    Buchler, N.E.2    Hwa, T.3    Gerland, U.4
  • 25
    • 55849110805 scopus 로고    scopus 로고
    • Calculation of switching times in the genetic toggle switch and other bistable systems
    • Barzel B, &, Biham O, (2008) Calculation of switching times in the genetic toggle switch and other bistable systems. Phys Rev E Stat Nonlin Soft Matter Phys 78, 041919.
    • (2008) Phys Rev e Stat Nonlin Soft Matter Phys , vol.78 , pp. 041919
    • Barzel, B.1    Biham, O.2
  • 26
    • 84855447444 scopus 로고    scopus 로고
    • Stability and multiattractor dynamics of a toggle switch based on a two-stage model of stochastic gene expression
    • Strasser M, Theis FJ, &, Marr C, (2012) Stability and multiattractor dynamics of a toggle switch based on a two-stage model of stochastic gene expression. Biophys J 102, 19-29.
    • (2012) Biophys J , vol.102 , pp. 19-29
    • Strasser, M.1    Theis, F.J.2    Marr, C.3
  • 27
    • 39149095636 scopus 로고    scopus 로고
    • SnapShot: Hematopoiesis
    • Orkin SH, &, Zon LI, (2008) SnapShot: hematopoiesis. Cell 132, 712.
    • (2008) Cell , vol.132 , pp. 712
    • Orkin, S.H.1    Zon, L.I.2
  • 31
    • 0001072895 scopus 로고
    • The use of confidence or fiducial limits illustrated in the case of the binomial
    • Clopper C, &, Pearson E, (1934) The use of confidence or fiducial limits illustrated in the case of the binomial. Biometrika 26, 404-413.
    • (1934) Biometrika , vol.26 , pp. 404-413
    • Clopper, C.1    Pearson, E.2
  • 32
    • 60149102751 scopus 로고    scopus 로고
    • Continuous single-cell imaging of blood generation from haemogenic endothelium
    • Eilken HM, Nishikawa SI, &, Schroeder T, (2009) Continuous single-cell imaging of blood generation from haemogenic endothelium. Nature 457, 896-900.
    • (2009) Nature , vol.457 , pp. 896-900
    • Eilken, H.M.1    Nishikawa, S.I.2    Schroeder, T.3
  • 33
    • 0034662159 scopus 로고    scopus 로고
    • Insertion of enhanced green fluorescent protein into the lysozyme gene creates mice with green fluorescent granulocytes and macrophages
    • Faust N, Varas F, Kelly LM, Heck S, &, Graf T, (2000) Insertion of enhanced green fluorescent protein into the lysozyme gene creates mice with green fluorescent granulocytes and macrophages. Blood 96, 719-726. (Pubitemid 30463397)
    • (2000) Blood , vol.96 , Issue.2 , pp. 719-726
    • Faust, N.1    Varas, F.2    Kelly, L.M.3    Heck, S.4    Graf, T.5
  • 34
    • 0030971490 scopus 로고    scopus 로고
    • Survival analysis in public health research
    • DOI 10.1146/annurev.publhealth.18.1.105
    • Lee ET, &, Go OT, (1997) Survival analysis in public health research. Annu Rev Public Health 18, 105-134. (Pubitemid 27194066)
    • (1997) Annual Review of Public Health , vol.18 , pp. 105-134
    • Lee, E.T.1    Go, O.T.2
  • 35
    • 33747196725 scopus 로고    scopus 로고
    • Multilineage Transcriptional Priming and Determination of Alternate Hematopoietic Cell Fates
    • DOI 10.1016/j.cell.2006.06.052, PII S0092867406009809
    • Laslo P, Spooner CJ, Warmflash A, Lancki DW, Lee HJ, Sciammas R, Gantner BN, Dinner AR, &, Singh H, (2006) Multilineage transcriptional priming and determination of alternate hematopoietic cell fates. Cell 126, 755-766. (Pubitemid 44233633)
    • (2006) Cell , vol.126 , Issue.4 , pp. 755-766
    • Laslo, P.1    Spooner, C.J.2    Warmflash, A.3    Lancki, D.W.4    Lee, H.-J.5    Sciammas, R.6    Gantner, B.N.7    Dinner, A.R.8    Singh, H.9
  • 37
    • 18644373047 scopus 로고    scopus 로고
    • PU.1 regulates the commitment of adult hematopoietic progenitors and restricts granulopoiesis
    • DOI 10.1084/jem.20050075
    • Dakic A, Metcalf D, Di Rago L, Mifsud S, Wu L, &, Nutt SL, (2005) PU.1 regulates the commitment of adult hematopoietic progenitors and restricts granulopoiesis. J Exp Med 201, 1487-1502. (Pubitemid 40664092)
    • (2005) Journal of Experimental Medicine , vol.201 , Issue.9 , pp. 1487-1502
    • Dakic, A.1    Metcalf, D.2    Di Rago, L.3    Mifsud, S.4    Wu, L.5    Nutt, S.L.6
  • 38
    • 0142124320 scopus 로고    scopus 로고
    • Regulation of macrophage and neutrophil cell fates by the PU.1:C/EBPα ratio and granulocyte colony-stimulating factor
    • DOI 10.1038/ni973
    • Dahl R, Walsh JC, Lancki D, Laslo P, Iyer SR, Singh H, &, Simon MC, (2003) Regulation of macrophage and neutrophil cell fates by the PU.1:C/EBPα ratio and granulocyte colony-stimulating factor. Nat Immunol 4, 1029-1036. (Pubitemid 37265925)
    • (2003) Nature Immunology , vol.4 , Issue.10 , pp. 1029-1036
    • Dahl, R.1    Walsh, J.C.2    Lancki, D.3    Laslo, P.4    Iyer, S.R.5    Singh, H.6    Celeste Simon, M.7
  • 39
    • 50849139175 scopus 로고    scopus 로고
    • Gene regulatory networks directing myeloid and lymphoid cell fates within the immune system
    • Laslo P, Pongubala JMR, Lancki DW, &, Singh H, (2008) Gene regulatory networks directing myeloid and lymphoid cell fates within the immune system. Semin Immunol 20, 228-235.
    • (2008) Semin Immunol , vol.20 , pp. 228-235
    • Laslo, P.1    Pongubala, J.M.R.2    Lancki, D.W.3    Singh, H.4
  • 40
    • 56249130793 scopus 로고    scopus 로고
    • Analytical distributions for stochastic gene expression
    • Shahrezaei V, &, Swain PS, (2008) Analytical distributions for stochastic gene expression. Proc Natl Acad Sci USA 105, 17256-17261.
    • (2008) Proc Natl Acad Sci USA , vol.105 , pp. 17256-17261
    • Shahrezaei, V.1    Swain, P.S.2
  • 43
    • 33645429016 scopus 로고
    • Exact stochastic simulation of coupled chemical reactions
    • Gillespie D, (1977) Exact stochastic simulation of coupled chemical reactions. J Phys Chem 81, 2340-2361.
    • (1977) J Phys Chem , vol.81 , pp. 2340-2361
    • Gillespie, D.1
  • 46
    • 75449108347 scopus 로고    scopus 로고
    • The simplicity of completion time distributions for common complex biochemical processes
    • Bel G, Munsky B, &, Nemenman I, (2010) The simplicity of completion time distributions for common complex biochemical processes. Phys Biol 7, 016003.
    • (2010) Phys Biol , vol.7 , pp. 016003
    • Bel, G.1    Munsky, B.2    Nemenman, I.3
  • 47
    • 58149142997 scopus 로고    scopus 로고
    • Approximate Bayesian computation scheme for parameter inference and model selection in dynamical systems
    • Toni T, Welch D, Strelkowa N, Ipsen A, &, Stumpf MPH, (2009) Approximate Bayesian computation scheme for parameter inference and model selection in dynamical systems. J R Soc Interface 6, 187-202.
    • (2009) J R Soc Interface , vol.6 , pp. 187-202
    • Toni, T.1    Welch, D.2    Strelkowa, N.3    Ipsen, A.4    Stumpf, M.P.H.5
  • 49
    • 0022522807 scopus 로고
    • A test of the stochastic theory of stem cell differentiation
    • Bjerknes M, (1986) A test of the stochastic theory of stem cell differentiation. Biophys J 49, 1223-1227. (Pubitemid 16083831)
    • (1986) Biophysical Journal , vol.49 , Issue.6 , pp. 1223-1227
    • Bjerknes, M.1


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