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Volumn 61, Issue 1, 2013, Pages 3-19

Multiscale Analysis of Biological Systems

Author keywords

Circular causality; Effective models; Integrative biology; Multiscale approaches; Regulation; Self consistent equations; Systems biology

Indexed keywords

BIOFILM; BOTTOM-UP APPROACH; EVOLUTIONARY BIOLOGY; GENOME; INTEGRATED APPROACH; NUMERICAL MODEL; SYSTEMS ANALYSIS; TOP-DOWN CONTROL;

EID: 84875655239     PISSN: 00015342     EISSN: None     Source Type: Journal    
DOI: 10.1007/s10441-013-9170-z     Document Type: Article
Times cited : (21)

References (60)
  • 1
    • 33746323651 scopus 로고    scopus 로고
    • On a computational approach for the approximate dynamics of averaged variables in nonlinear ODE systems: toward the derivation of constitutive laws of the rate type
    • Acharya A, Sawant A (2006) On a computational approach for the approximate dynamics of averaged variables in nonlinear ODE systems: toward the derivation of constitutive laws of the rate type. J Mech Phys Solids 54: 2183-2213.
    • (2006) J Mech Phys Solids , vol.54 , pp. 2183-2213
    • Acharya, A.1    Sawant, A.2
  • 2
    • 34247953814 scopus 로고
    • More is different
    • Anderson PW (1972) More is different. Sci Agric 177: 393-396.
    • (1972) Science , vol.177 , pp. 393-396
    • Anderson, P.W.1
  • 3
    • 0007110738 scopus 로고    scopus 로고
    • Singularly perturbed ordinary differential equations with nonautonomous fast dynamics
    • Artstein Z (1999) Singularly perturbed ordinary differential equations with nonautonomous fast dynamics. J Dyn Differ Equ 11: 297-318.
    • (1999) J Dyn Differ Equ , vol.11 , pp. 297-318
    • Artstein, Z.1
  • 4
    • 44149116706 scopus 로고    scopus 로고
    • Aggregation methods in dynamical systems and applications in population and community dynamics
    • Auger P, de la Parra RB, Poggiale JC, Sánchez E, Sanz L (2008) Aggregation methods in dynamical systems and applications in population and community dynamics. Phys Life Rev 5: 79-105.
    • (2008) Phys Life Rev , vol.5 , pp. 79-105
    • Auger, P.1    Parra, R.B.2    Poggiale, J.C.3    Sánchez, E.4    Sanz, L.5
  • 6
    • 77749306483 scopus 로고    scopus 로고
    • Transcription within condensed chromatin: steric hindrance facilitates elongation
    • Bécavin C, Barbi M, Victor JM, Lesne A (2010) Transcription within condensed chromatin: steric hindrance facilitates elongation. Biophys J 98: 824-833.
    • (2010) Biophys J , vol.98 , pp. 824-833
    • Bécavin, C.1    Barbi, M.2    Victor, J.M.3    Lesne, A.4
  • 7
    • 0037211751 scopus 로고    scopus 로고
    • Multiscale homogenization with bounded ratios and anomalous slow diffusion
    • Ben Arous G, Owhadi H (2003) Multiscale homogenization with bounded ratios and anomalous slow diffusion. Comm Pure Appl Math 56: 80-113.
    • (2003) Comm Pure Appl Math , vol.56 , pp. 80-113
    • Ben Arous, G.1    Owhadi, H.2
  • 8
    • 0035509641 scopus 로고    scopus 로고
    • Chromatin: a tunable spring at work inside chromosomes
    • Ben Haïm E, Lesne A, Victor JM (2001) Chromatin: a tunable spring at work inside chromosomes. Phys Rev E 64: 051921.
    • (2001) Phys Rev E , vol.64 , pp. 051921
    • Ben Haïm, E.1    Lesne, A.2    Victor, J.M.3
  • 10
    • 9344239339 scopus 로고    scopus 로고
    • Long-range compaction and flexibility of interphase chromatin in budding yeast analyzed by high-resolution imaging techniques
    • Bystricky K, Heun P, Gehlen L, Langowski J, Gasser SM (2004) Long-range compaction and flexibility of interphase chromatin in budding yeast analyzed by high-resolution imaging techniques. Proc Natl Acad Sci USA 101: 16495-16500.
    • (2004) Proc Natl Acad Sci USA , vol.101 , pp. 16495-16500
    • Bystricky, K.1    Heun, P.2    Gehlen, L.3    Langowski, J.4    Gasser, S.M.5
  • 12
    • 84870688890 scopus 로고    scopus 로고
    • Homogenised model linking microscopic and macroscopic dynamics of a biofilm: application to growth in a plug flow reactor
    • Deygout C, Lesne A, Campillo F, Rapaport A (2013) Homogenised model linking microscopic and macroscopic dynamics of a biofilm: application to growth in a plug flow reactor. Ecol Model 250: 15-24.
    • (2013) Ecol Model , vol.250 , pp. 15-24
    • Deygout, C.1    Lesne, A.2    Campillo, F.3    Rapaport, A.4
  • 13
    • 0001398884 scopus 로고    scopus 로고
    • Relaxation projections and the method of moments
    • U. Dieckmann, R. Law, and J. A. J. Metz (Eds.), Cambridge: Cambridge University Press
    • Dieckmann U, Law R (2000) Relaxation projections and the method of moments. In: Dieckmann U, Law R, Metz JAJ (eds) The geometry of ecological interactions: simplifying spatial complexity. Cambridge University Press, Cambridge, pp 412-455.
    • (2000) The Geometry of Ecological Interactions: Simplifying Spatial Complexity , pp. 412-455
    • Dieckmann, U.1    Law, R.2
  • 14
    • 85128805678 scopus 로고    scopus 로고
    • The heterogeneous multiscale methods
    • E W
    • E W, Engquist B (2003) The heterogeneous multiscale methods. Comm Math Sci 1: 87-132.
    • (2003) Comm Math Sci , vol.1 , pp. 87-132
    • Engquist, B.1
  • 15
    • 66349119018 scopus 로고    scopus 로고
    • A general strategy for designing seamless multiscale methods
    • E W
    • E W, Ren W, Vanden-Eijnden E (2009) A general strategy for designing seamless multiscale methods. J Comput Phys 228: 5437-5453.
    • (2009) J Comput Phys , vol.228 , pp. 5437-5453
    • Ren, W.1    Vanden-Eijnden, E.2
  • 16
    • 60249095767 scopus 로고    scopus 로고
    • Practical coexistence of two species in the chemostat-a slow-fast characterization
    • El Hajji M, Rapaport A (2009) Practical coexistence of two species in the chemostat-a slow-fast characterization. Math Biosci 218: 33-39.
    • (2009) Math Biosci , vol.218 , pp. 33-39
    • El Hajji, M.1    Rapaport, A.2
  • 17
    • 20444447137 scopus 로고    scopus 로고
    • Physics, complexity, and causality
    • Ellis GFR (2005) Physics, complexity, and causality. Nat Biotechnol 435: 743.
    • (2005) Nature , vol.435 , pp. 743
    • Ellis, G.F.R.1
  • 18
    • 0347193736 scopus 로고
    • Reaction rate theory: fifty years after Kramers
    • Hänggi P, Talkner P, Borkovec M (1990) Reaction rate theory: fifty years after Kramers. Rev Mod Phys 62: 251-342.
    • (1990) Rev Mod Phys , vol.62 , pp. 251-342
    • Hänggi, P.1    Talkner, P.2    Borkovec, M.3
  • 20
    • 0347876126 scopus 로고    scopus 로고
    • Spectral signatures of hierarchical relaxation
    • Gaveau B, Lesne A, Schulman LS (1999) Spectral signatures of hierarchical relaxation. Phys Lett A 258: 222-228.
    • (1999) Phys Lett A , vol.258 , pp. 222-228
    • Gaveau, B.1    Lesne, A.2    Schulman, L.S.3
  • 21
    • 3042793188 scopus 로고    scopus 로고
    • Extracting macroscopic dynamics: model problems and algorithms
    • Givon D, Kupferman R, Stuart A (2004) Extracting macroscopic dynamics: model problems and algorithms. Nonlinearity 17: R55-R127.
    • (2004) Nonlinearity , vol.17
    • Givon, D.1    Kupferman, R.2    Stuart, A.3
  • 24
    • 0035839136 scopus 로고    scopus 로고
    • Translating the histone code
    • Jenuwein T, Allis CD (2001) Translating the histone code. Sci Agric 293: 1074-1080.
    • (2001) Science , vol.293 , pp. 1074-1080
    • Jenuwein, T.1    Allis, C.D.2
  • 26
    • 84982060514 scopus 로고
    • Röntgenuntersuchung gelöster Fadenmoleküle
    • Kratky O, Porod G (1949) Röntgenuntersuchung gelöster Fadenmoleküle. Rec Trav Chim Pays-Bas 68: 1106-1123.
    • (1949) Rec Trav Chim Pays-Bas , vol.68 , pp. 1106-1123
    • Kratky, O.1    Porod, G.2
  • 28
    • 0000937122 scopus 로고
    • On the theory of Brownian motion
    • Reprinted in Am J Phys 65: 1079-1081 (1997)
    • Langevin P (1908) On the theory of Brownian motion. C. R. Acad Sci (Paris) 146: 530-533. Reprinted in Am J Phys 65: 1079-1081 (1997).
    • (1908) C. R. Acad Sci (Paris) , vol.146 , pp. 530-533
    • Langevin, P.1
  • 29
    • 0000372487 scopus 로고
    • Langevin approach to a chemical wave-front: selection of the propagation velocity by internal noise
    • Lemarchand A, Lesne A, Mareschal M (1995) Langevin approach to a chemical wave-front: selection of the propagation velocity by internal noise. Phys Rev E 51: 4457-4465.
    • (1995) Phys Rev E , vol.51 , pp. 4457-4465
    • Lemarchand, A.1    Lesne, A.2    Mareschal, M.3
  • 31
    • 85070018425 scopus 로고    scopus 로고
    • Multiscale approaches
    • J. P. Françoise, G. Naber, and (Tsun TS (Eds.), Amsterdam: Elsevier
    • Lesne A (2006) Multiscale approaches. In: Françoise JP, Naber G, Tsun TS (eds) Encyclopedia of mathematical physics. Elsevier, Amsterdam, pp 465-482.
    • (2006) Encyclopedia of Mathematical Physics , pp. 465-482
    • Lesne, A.1
  • 32
    • 43449122446 scopus 로고    scopus 로고
    • Discrete vs continuous controversy in physics
    • Lesne A (2007) Discrete vs continuous controversy in physics. Math Struct Comput Sci 17: 185-223.
    • (2007) Math Struct Comput Sci , vol.17 , pp. 185-223
    • Lesne, A.1
  • 33
    • 84856955392 scopus 로고    scopus 로고
    • The condensed chromatin fiber: an allosteric chemo-mechanical machine for signal transduction and genome processing
    • Lesne A, Bécavin C, Victor JM (2012) The condensed chromatin fiber: an allosteric chemo-mechanical machine for signal transduction and genome processing. Phys Biol 9: 013001.
    • (2012) Phys Biol , vol.9 , pp. 013001
    • Lesne, A.1    Bécavin, C.2    Victor, J.M.3
  • 34
    • 44849143914 scopus 로고    scopus 로고
    • Probability landscapes for integrative genomics
    • Lesne A, Benecke A (2008a) Probability landscapes for integrative genomics. Theor Biol Med Model 5: 9.
    • (2008) Theor Biol Med Model , vol.5 , pp. 9
    • Lesne, A.1    Benecke, A.2
  • 35
    • 53249124809 scopus 로고    scopus 로고
    • Feature context-dependency and complexity reduction in probability landscapes for integrative genomics
    • Lesne A, Benecke A (2008b) Feature context-dependency and complexity reduction in probability landscapes for integrative genomics. Theor Biol Med Model 5: 21.
    • (2008) Theor Biol Med Model , vol.5 , pp. 21
    • Lesne, A.1    Benecke, A.2
  • 36
    • 33645275449 scopus 로고    scopus 로고
    • Chromatin fiber functional organization: some plausible models
    • Lesne A, Victor JM (2006) Chromatin fiber functional organization: some plausible models. Eur Phys J E 19: 279-290.
    • (2006) Eur Phys J E , vol.19 , pp. 279-290
    • Lesne, A.1    Victor, J.M.2
  • 39
    • 40649089205 scopus 로고    scopus 로고
    • Two distinct logical types of network control in gene expression profiles
    • Marr C, Geertz M, Hütt MT, Muskhelishvili G (2008) Two distinct logical types of network control in gene expression profiles. BMC Syst Biol 2: 18.
    • (2008) BMC Syst Biol , vol.2 , pp. 18
    • Marr, C.1    Geertz, M.2    Hütt, M.T.3    Muskhelishvili, G.4
  • 40
    • 33748958297 scopus 로고    scopus 로고
    • On the bidirectional stress distribution in rectangular bonded composite patches
    • Mathias JD, Grediac M, Balandraud X (2006) On the bidirectional stress distribution in rectangular bonded composite patches. Int J Solids Struct 43: 6921-6947.
    • (2006) Int J Solids Struct , vol.43 , pp. 6921-6947
    • Mathias, J.D.1    Grediac, M.2    Balandraud, X.3
  • 41
    • 30644479149 scopus 로고    scopus 로고
    • A physical model for the condensation and decondensation of eukaryotic chromosomes
    • Mozziconacci J, Lavelle C, Barbi M, Lesne A, Victor JM (2006) A physical model for the condensation and decondensation of eukaryotic chromosomes. FEBS Lett 580: 368-372.
    • (2006) FEBS Lett , vol.580 , pp. 368-372
    • Mozziconacci, J.1    Lavelle, C.2    Barbi, M.3    Lesne, A.4    Victor, J.M.5
  • 42
    • 0042167417 scopus 로고    scopus 로고
    • Nucleosome gaping supports a functional structure for the 30 nm chromatin fiber
    • Mozziconacci J, Victor JM (2003) Nucleosome gaping supports a functional structure for the 30 nm chromatin fiber. J Struct Biol 143: 72-76.
    • (2003) J Struct Biol , vol.143 , pp. 72-76
    • Mozziconacci, J.1    Victor, J.M.2
  • 44
    • 77949706153 scopus 로고    scopus 로고
    • General organisational principles of the transcriptional regulation system: a tree or a circle?
    • Muskhelishvili G, Sobetzko P, Geertz M, Berger M (2010) General organisational principles of the transcriptional regulation system: a tree or a circle?. Mol BioSyst 6: 662-676.
    • (2010) Mol BioSyst , vol.6 , pp. 662-676
    • Muskhelishvili, G.1    Sobetzko, P.2    Geertz, M.3    Berger, M.4
  • 46
    • 0034946945 scopus 로고    scopus 로고
    • Diffusion and related transport mechanisms in brain tissue
    • Nicholson C (2001) Diffusion and related transport mechanisms in brain tissue. Rep Prog Phys 64: 815-884.
    • (2001) Rep Prog Phys , vol.64 , pp. 815-884
    • Nicholson, C.1
  • 47
    • 0014425524 scopus 로고
    • Life's irreducible structure
    • Polanyi M (1968) Life's irreducible structure. Sci Agric 160: 1308-1312.
    • (1968) Science , vol.160 , pp. 1308-1312
    • Polanyi, M.1
  • 50
    • 0004146634 scopus 로고
    • Cambridge: Cambridge University Press
    • Schrödinger E (1944) What is life. Cambridge University Press, Cambridge.
    • (1944) What is Life
    • Schrödinger, E.1
  • 51
    • 0000790263 scopus 로고
    • The architecture of complexity
    • Simon HA (1962) The architecture of complexity. Proc Am Phil Soc 106: 467-482.
    • (1962) Proc Am Phil Soc , vol.106 , pp. 467-482
    • Simon, H.A.1
  • 52
    • 0037423733 scopus 로고    scopus 로고
    • Sequence-dependent nucleosome structural and dynamic polymorphism. Potential involvement of histone H2B N-terminal tail proximal domain
    • Sivolob A, Lavelle C, Prunell A (2003) Sequence-dependent nucleosome structural and dynamic polymorphism. Potential involvement of histone H2B N-terminal tail proximal domain. J Mol Biol 326: 49-63.
    • (2003) J Mol Biol , vol.326 , pp. 49-63
    • Sivolob, A.1    Lavelle, C.2    Prunell, A.3
  • 53
    • 0042767995 scopus 로고    scopus 로고
    • The dynamics of chromosome; organization and gene regulation
    • Spector DL (2003) The dynamics of chromosome; organization and gene regulation. Annu Rev Biochem 72: 573-608.
    • (2003) Annu Rev Biochem , vol.72 , pp. 573-608
    • Spector, D.L.1
  • 55
    • 13444288385 scopus 로고    scopus 로고
    • DNA supercoiling-a global transcriptional regulator for enterobacterial growth
    • Travers A, Muskhelishvili G (2005) DNA supercoiling-a global transcriptional regulator for enterobacterial growth. Nat Rev Microbiol 3: 157-169.
    • (2005) Nat Rev Microbiol , vol.3 , pp. 157-169
    • Travers, A.1    Muskhelishvili, G.2
  • 57
    • 0033515824 scopus 로고    scopus 로고
    • Complexity in natural landform patterns
    • Werner BT (1999) Complexity in natural landform patterns. Sci Agric 284: 102-104.
    • (1999) Science , vol.284 , pp. 102-104
    • Werner, B.T.1
  • 58
    • 36749082174 scopus 로고    scopus 로고
    • An all-atom model of the chromatin fiber containing linker histones reveals a versatile structure tuned by nucleosomal repeat length
    • Wong H, Victor JM, Mozziconacci J (2007) An all-atom model of the chromatin fiber containing linker histones reveals a versatile structure tuned by nucleosomal repeat length. PLoS One 2: e877.
    • (2007) PLoS One , vol.2
    • Wong, H.1    Victor, J.M.2    Mozziconacci, J.3
  • 59
    • 0027517831 scopus 로고
    • A chromatin folding model that incorporates linker variability generates fibers resembling the native structures
    • Woodcock CL, Grigoryev SA, Horowitz RA, Whitaker N (1993) A chromatin folding model that incorporates linker variability generates fibers resembling the native structures. Proc Natl Acad Sci USA 90: 9021-9025.
    • (1993) Proc Natl Acad Sci USA , vol.90 , pp. 9021-9025
    • Woodcock, C.L.1    Grigoryev, S.A.2    Horowitz, R.A.3    Whitaker, N.4


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.