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Volumn 3, Issue , 2009, Pages 94-

Inferring Drosophila gap gene regulatory network: A parameter sensitivity and perturbation analysis

Author keywords

[No Author keywords available]

Indexed keywords

DROSOPHILA PROTEIN; GUANOSINE TRIPHOSPHATASE ACTIVATING PROTEIN;

EID: 70449515650     PISSN: None     EISSN: 17520509     Source Type: Journal    
DOI: 10.1186/1752-0509-3-94     Document Type: Article
Times cited : (25)

References (96)
  • 2
    • 0036941857 scopus 로고    scopus 로고
    • Looking beyond the details: a rise in system-oriented approaches in genetics and molecular biology
    • 10.1007/s00294-002-0285-z, 12073094
    • Kitano H. Looking beyond the details: a rise in system-oriented approaches in genetics and molecular biology. Curr Genet 2002, 41:1-10. 10.1007/s00294-002-0285-z, 12073094.
    • (2002) Curr Genet , vol.41 , pp. 1-10
    • Kitano, H.1
  • 3
    • 0037165942 scopus 로고    scopus 로고
    • Combinatorial Synthesis of Genetic Networks
    • 10.1126/science.1067407, 12029133
    • Guet CC, Elowitz MB, Hsing W, Leibler S. Combinatorial Synthesis of Genetic Networks. Science 2002, 296:1466-1470. 10.1126/science.1067407, 12029133.
    • (2002) Science , vol.296 , pp. 1466-1470
    • Guet, C.C.1    Elowitz, M.B.2    Hsing, W.3    Leibler, S.4
  • 4
    • 14844323127 scopus 로고    scopus 로고
    • From molecular networks to qualitative cell behavior
    • 10.1016/j.febslet.2005.02.007, 15763565
    • Julien Gagneur GC. From molecular networks to qualitative cell behavior. FEBS letters 2005, 579(8):1867-1871. 10.1016/j.febslet.2005.02.007, 15763565.
    • (2005) FEBS letters , vol.579 , Issue.8 , pp. 1867-1871
    • Julien Gagneur, G.C.1
  • 5
    • 84860513120 scopus 로고    scopus 로고
    • Validation of qualitative models of genetic regulatory networks by model checking: analysis of the nutritional stress response in Escherichia coli
    • 10.1093/bioinformatics/bti1048, 15961457
    • Batt G, Ropers D, de Jong H, Geiselmann J, Mateescu R, Page M, Schneider D. Validation of qualitative models of genetic regulatory networks by model checking: analysis of the nutritional stress response in Escherichia coli. Bioinformatics 2005, 21(Suppl 1):i19-28. 10.1093/bioinformatics/bti1048, 15961457.
    • (2005) Bioinformatics , vol.21 , Issue.SUPPL 1
    • Batt, G.1    Ropers, D.2    de Jong, H.3    Geiselmann, J.4    Mateescu, R.5    Page, M.6    Schneider, D.7
  • 6
    • 33747871080 scopus 로고    scopus 로고
    • Quantitative models of developmental pattern formation
    • 10.1016/j.devcel.2006.08.006, 16950121
    • Reeves GT, Muratov CB, Schupbach T, Shvartsman SY. Quantitative models of developmental pattern formation. Dev Cell 2006, 11(3):289-300. 10.1016/j.devcel.2006.08.006, 16950121.
    • (2006) Dev Cell , vol.11 , Issue.3 , pp. 289-300
    • Reeves, G.T.1    Muratov, C.B.2    Schupbach, T.3    Shvartsman, S.Y.4
  • 7
    • 0036207347 scopus 로고    scopus 로고
    • Modeling and Simulation of Genetic Regulatory Systems: A Literature Review
    • 10.1089/10665270252833208, 11911796
    • de Jong H. Modeling and Simulation of Genetic Regulatory Systems: A Literature Review. J Comput Biol 2002, 9:67-103. 10.1089/10665270252833208, 11911796.
    • (2002) J Comput Biol , vol.9 , pp. 67-103
    • de Jong, H.1
  • 8
    • 70449515588 scopus 로고    scopus 로고
    • Reconstructing Gene Network from Large Scale
    • University of New Mexico
    • D'haeseleer P. Reconstructing Gene Network from Large Scale. PhD thesis 2000, University of New Mexico.
    • (2000) PhD thesis
    • D'haeseleer, P.1
  • 9
    • 0242574982 scopus 로고    scopus 로고
    • Parameter Estimation in Biochemical Pathways: A Comparison of Global Optimization Methods
    • 10.1101/gr.1262503, 403766, 14559783
    • Moles CG, Mendes P, Banga JR. Parameter Estimation in Biochemical Pathways: A Comparison of Global Optimization Methods. Genome Res 2003, 13(11):2467-2474. 10.1101/gr.1262503, 403766, 14559783.
    • (2003) Genome Res , vol.13 , Issue.11 , pp. 2467-2474
    • Moles, C.G.1    Mendes, P.2    Banga, J.R.3
  • 11
    • 38349055557 scopus 로고    scopus 로고
    • Indeterminacy of Reverse Engineering of Gene Regulatory Networks: The Curse of Gene Elasticity
    • 10.1371/journal.pone.0000562, 1894653, 17593963
    • Krishnan A, Giuliani A, Tomita M. Indeterminacy of Reverse Engineering of Gene Regulatory Networks: The Curse of Gene Elasticity. PLoS ONE 2007, 2(6):e562. 10.1371/journal.pone.0000562, 1894653, 17593963.
    • (2007) PLoS ONE , vol.2 , Issue.6
    • Krishnan, A.1    Giuliani, A.2    Tomita, M.3
  • 12
    • 35748977901 scopus 로고    scopus 로고
    • Universally sloppy parameter sensitivities in systems biology models
    • 10.1371/journal.pcbi.0030189, 2000971,2000971, 17922568
    • Gutenkunst RN, Waterfall JJ, Casey FP, Brown KS, Myers CR, Sethna JP. Universally sloppy parameter sensitivities in systems biology models. PLoS Comput Biol 2007, 3(10):1871-1878. 10.1371/journal.pcbi.0030189, 2000971,2000971, 17922568.
    • (2007) PLoS Comput Biol , vol.3 , Issue.10 , pp. 1871-1878
    • Gutenkunst, R.N.1    Waterfall, J.J.2    Casey, F.P.3    Brown, K.S.4    Myers, C.R.5    Sethna, J.P.6
  • 13
    • 33750374139 scopus 로고    scopus 로고
    • Linking data to models: data regression
    • 10.1038/nrm2030, 17006434
    • Jaqaman K, Danuser G. Linking data to models: data regression. Nat Rev Mol Cell Biol 2006, 7(11):813-819. 10.1038/nrm2030, 17006434.
    • (2006) Nat Rev Mol Cell Biol , vol.7 , Issue.11 , pp. 813-819
    • Jaqaman, K.1    Danuser, G.2
  • 15
    • 0037133146 scopus 로고    scopus 로고
    • Complexity and robustness
    • 10.1073/pnas.012582499, 128573, 11875207
    • Carlson J, Doyle J. Complexity and robustness. Proc Natl Acad Sci 2002, 99:2538-2545. 10.1073/pnas.012582499, 128573, 11875207.
    • (2002) Proc Natl Acad Sci , vol.99 , pp. 2538-2545
    • Carlson, J.1    Doyle, J.2
  • 16
    • 34548825690 scopus 로고    scopus 로고
    • Towards a theory of biological robustness
    • 10.1038/msb4100179, 2013924, 17882156
    • Kitano H. Towards a theory of biological robustness. Mol Syst Biol 2007, 3:137. 10.1038/msb4100179, 2013924, 17882156.
    • (2007) Mol Syst Biol , vol.3 , pp. 137
    • Kitano, H.1
  • 17
    • 2142640522 scopus 로고    scopus 로고
    • Stable or robust? What's the difference?
    • Jen E. Stable or robust? What's the difference?. Complexity 2003, 8:12-18.
    • (2003) Complexity , vol.8 , pp. 12-18
    • Jen, E.1
  • 18
    • 36348992094 scopus 로고    scopus 로고
    • Robustness and evolvability: a paradox resolved
    • Wagner A. Robustness and evolvability: a paradox resolved. Proc R Soc Lond B Biol Sci 2008, 275:91-100.
    • (2008) Proc R Soc Lond B Biol Sci , vol.275 , pp. 91-100
    • Wagner, A.1
  • 19
    • 4444322221 scopus 로고    scopus 로고
    • Robustness properties of circadian clock architectures
    • 10.1073/pnas.0401463101, 516549, 15340155
    • Stelling J, Gilles E, Doyle F. Robustness properties of circadian clock architectures. Proc Natl Acad Sci USA 2004, 101:13210-13215. 10.1073/pnas.0401463101, 516549, 15340155.
    • (2004) Proc Natl Acad Sci USA , vol.101 , pp. 13210-13215
    • Stelling, J.1    Gilles, E.2    Doyle, F.3
  • 20
    • 4544346660 scopus 로고    scopus 로고
    • Robustness of Cellular Functions
    • 10.1016/j.cell.2004.09.008, 15369668
    • Stelling J, Sauer U, Szallasi Z, Doyle FJ, Doyle J. Robustness of Cellular Functions. Cell 2004, 118(6):675-685. 10.1016/j.cell.2004.09.008, 15369668.
    • (2004) Cell , vol.118 , Issue.6 , pp. 675-685
    • Stelling, J.1    Sauer, U.2    Szallasi, Z.3    Doyle, F.J.4    Doyle, J.5
  • 21
    • 0035902599 scopus 로고    scopus 로고
    • Intrinsic noise in gene regulatory networks
    • 10.1073/pnas.151588598, 37484, 11438714
    • Thattai M, van Oudenaarden A. Intrinsic noise in gene regulatory networks. Proc Natl Acad Sci 2001, 98:8614-8619. 10.1073/pnas.151588598, 37484, 11438714.
    • (2001) Proc Natl Acad Sci , vol.98 , pp. 8614-8619
    • Thattai, M.1    van Oudenaarden, A.2
  • 22
    • 0242416539 scopus 로고    scopus 로고
    • Noise in eukaryotic gene expression
    • 10.1038/nature01546, 12687005
    • Blake W, Kaern M, Cantor C, Collins J. Noise in eukaryotic gene expression. Nature 2003, 422:633-637. 10.1038/nature01546, 12687005.
    • (2003) Nature , vol.422 , pp. 633-637
    • Blake, W.1    Kaern, M.2    Cantor, C.3    Collins, J.4
  • 23
    • 0242490789 scopus 로고    scopus 로고
    • Importance of Input Perturbations and Stochastic Gene Expression in the Reverse Engineering of Genetic Regulatory Networks: Insights From an Identifiability Analysis of an In Silico Network
    • Daniel E, Zak GEG, Schwaber JS, Francis J, Doyle I. Importance of Input Perturbations and Stochastic Gene Expression in the Reverse Engineering of Genetic Regulatory Networks: Insights From an Identifiability Analysis of an In Silico Network. Genome Research 2003,
    • (2003) Genome Research
    • Daniel, E.1    Zak, G.E.G.2    Schwaber, J.S.3    Francis, J.4    Doyle, I.5
  • 24
    • 44449094175 scopus 로고    scopus 로고
    • Stability analysis of genetic regulatory network with additive noises
    • 10.1186/1471-2164-9-S1-S21, 2386064, 18366611
    • Jin Y, Lindsey M. Stability analysis of genetic regulatory network with additive noises. BMC Genomics 2008, 9(Suppl 1):S21. 10.1186/1471-2164-9-S1-S21, 2386064, 18366611.
    • (2008) BMC Genomics , vol.9 , Issue.SUPPL 1
    • Jin, Y.1    Lindsey, M.2
  • 25
    • 0037078982 scopus 로고    scopus 로고
    • Control, exploitation and tolerance of intracellular noise
    • 10.1038/nature01258, 12432408
    • Rao CV, Wolf DM, Arkin AP. Control, exploitation and tolerance of intracellular noise. Nature 2002, 420:231-237. 10.1038/nature01258, 12432408.
    • (2002) Nature , vol.420 , pp. 231-237
    • Rao, C.V.1    Wolf, D.M.2    Arkin, A.P.3
  • 26
    • 0030797355 scopus 로고    scopus 로고
    • Robustness in simple biochemical networks
    • 10.1038/43199, 9202124
    • Barkai N, Leibler S. Robustness in simple biochemical networks. Nature 1997, 387:913-917. 10.1038/43199, 9202124.
    • (1997) Nature , vol.387 , pp. 913-917
    • Barkai, N.1    Leibler, S.2
  • 27
    • 0034644270 scopus 로고    scopus 로고
    • The segment polarity network is a robust developmental module
    • 10.1038/35018085, 10910359
    • George von Dassow EMM, Eli Meir, Odell GM. The segment polarity network is a robust developmental module. Nature 2000, 406:188-192. 10.1038/35018085, 10910359.
    • (2000) Nature , vol.406 , pp. 188-192
    • George von Dassow, E.M.M.1    Eli Meir2    Odell, G.M.3
  • 28
    • 0036607108 scopus 로고    scopus 로고
    • Modeling a Hox gene network in silico using a stochastic simulation algorithm
    • 10.1006/dbio.2002.0664, 12027438
    • Kastner J, Solomon J, Fraser S. Modeling a Hox gene network in silico using a stochastic simulation algorithm. Developmental Biology 2002, 246:122-131. 10.1006/dbio.2002.0664, 12027438.
    • (2002) Developmental Biology , vol.246 , pp. 122-131
    • Kastner, J.1    Solomon, J.2    Fraser, S.3
  • 29
    • 0023032969 scopus 로고
    • Cross-regulatory interactions among the gap genes of Drosophila
    • Jackle H, Tautz D, Schuh R, Seifert E, Lehmann R. Cross-regulatory interactions among the gap genes of Drosophila. Nature 1986, 324(6098):668-670.
    • (1986) Nature , vol.324 , Issue.6098 , pp. 668-670
    • Jackle, H.1    Tautz, D.2    Schuh, R.3    Seifert, E.4    Lehmann, R.5
  • 30
    • 0025297418 scopus 로고
    • Control of the initiation of homeotic gene expression by the gap genes giant and tailless in Drosophila
    • 10.1016/0012-1606(90)90053-L, 1972684
    • Reinitz J, Levine M. Control of the initiation of homeotic gene expression by the gap genes giant and tailless in Drosophila. Dev Biol 1990, 140:57-72. 10.1016/0012-1606(90)90053-L, 1972684.
    • (1990) Dev Biol , vol.140 , pp. 57-72
    • Reinitz, J.1    Levine, M.2
  • 31
    • 0026547230 scopus 로고
    • The giant gene of Drosophila encodes a b-ZIP DNA-binding protein that regulates the expression of other segmentation gap genes
    • Capovilla M, Eldon ED, Pirrotta V. The giant gene of Drosophila encodes a b-ZIP DNA-binding protein that regulates the expression of other segmentation gap genes. Development 1992, 114:99-112.
    • (1992) Development , vol.114 , pp. 99-112
    • Capovilla, M.1    Eldon, E.D.2    Pirrotta, V.3
  • 32
    • 0347987855 scopus 로고    scopus 로고
    • A self-organizing system of repressor gradients establishes segmental complexity in Drosophila
    • 10.1038/nature02189, 14685241
    • DE C, MSG C, X W, A P, D P. A self-organizing system of repressor gradients establishes segmental complexity in Drosophila. Nature 2003, 426:849-853. 10.1038/nature02189, 14685241.
    • (2003) Nature , vol.426 , pp. 849-853
    • DE, C.1    MSG, C.2    X, W.3    A, P.4    D, P.5
  • 34
    • 0030281034 scopus 로고    scopus 로고
    • From gradients to stripes in Drosophila embryogenesis: filling in the gaps
    • 10.1016/0168-9525(96)10044-5, 8973159
    • Rolando Rivera-Pomar HJ. From gradients to stripes in Drosophila embryogenesis: filling in the gaps. Trends in Genetics 1996, 12(11):478-483. 10.1016/0168-9525(96)10044-5, 8973159.
    • (1996) Trends in Genetics , vol.12 , Issue.11 , pp. 478-483
    • Rolando Rivera-Pomar, H.J.1
  • 35
    • 0023635756 scopus 로고
    • The molecular basis for metameric pattern in the Drosophila embryo
    • Akam M. The molecular basis for metameric pattern in the Drosophila embryo. Development 1987, 101:1-22.
    • (1987) Development , vol.101 , pp. 1-22
    • Akam, M.1
  • 36
    • 0024075160 scopus 로고
    • The molecular genetics of embryonic pattern formation in Drosophila
    • 10.1038/335025a0, 2901040
    • Ingham PW. The molecular genetics of embryonic pattern formation in Drosophila. Nature 1988, 335(6185):25-34. 10.1038/335025a0, 2901040.
    • (1988) Nature , vol.335 , Issue.6185 , pp. 25-34
    • Ingham, P.W.1
  • 37
    • 0026537051 scopus 로고
    • The origin of pattern and polarity in the Drosophila embryo
    • 10.1016/0092-8674(92)90466-P, 1733499
    • St Johnston D, Nusslein-Volhard C. The origin of pattern and polarity in the Drosophila embryo. Cell 1992, 68(2):201-219. 10.1016/0092-8674(92)90466-P, 1733499.
    • (1992) Cell , vol.68 , Issue.2 , pp. 201-219
    • St Johnston, D.1    Nusslein-Volhard, C.2
  • 38
    • 70449512037 scopus 로고    scopus 로고
    • A logical analysis of the gap gene system
    • Sánchez L, Thieffry D. A logical analysis of the gap gene system. Theor Biol 2001, 211:114-141.
    • (2001) Theor Biol , vol.211 , pp. 114-141
    • Sánchez, L.1    Thieffry, D.2
  • 39
    • 0025991216 scopus 로고
    • A connectionist model of development
    • 10.1016/S0022-5193(05)80391-1, 1758194
    • Mjolsness E, Sharp DH, Reinitz J. A connectionist model of development. J Theor Biol 1991, 152(4):429-453. 10.1016/S0022-5193(05)80391-1, 1758194.
    • (1991) J Theor Biol , vol.152 , Issue.4 , pp. 429-453
    • Mjolsness, E.1    Sharp, D.H.2    Reinitz, J.3
  • 40
    • 0028897360 scopus 로고
    • Mechanism of eve stripe formation
    • 10.1016/0925-4773(94)00310-J, 7748785
    • Reinitz J, Sharp DH. Mechanism of eve stripe formation. Mech Dev 1995, 49(1-2):133-158. 10.1016/0925-4773(94)00310-J, 7748785.
    • (1995) Mech Dev , vol.49 , Issue.1-2 , pp. 133-158
    • Reinitz, J.1    Sharp, D.H.2
  • 41
    • 0031824633 scopus 로고    scopus 로고
    • Prediction of mutant expression patterns using gene circuits
    • 10.1016/S0303-2647(98)00014-8, 9715752
    • Sharp DH, Reinitz J. Prediction of mutant expression patterns using gene circuits. Biosystems 1998, 47(1-2):79-90. 10.1016/S0303-2647(98)00014-8, 9715752.
    • (1998) Biosystems , vol.47 , Issue.1-2 , pp. 79-90
    • Sharp, D.H.1    Reinitz, J.2
  • 43
    • 33646901020 scopus 로고    scopus 로고
    • Reverse engineering the gap gene network of Drosophila melanogaster
    • 10.1371/journal.pcbi.0020051, 1463021,1463021, 16710449
    • Perkins TJ, Jaeger J, Reinitz J, Glass L. Reverse engineering the gap gene network of Drosophila melanogaster. PLoS Comput Biol 2006, 2(5):e51. 10.1371/journal.pcbi.0020051, 1463021,1463021, 16710449.
    • (2006) PLoS Comput Biol , vol.2 , Issue.5
    • Perkins, T.J.1    Jaeger, J.2    Reinitz, J.3    Glass, L.4
  • 44
    • 33749137281 scopus 로고    scopus 로고
    • Quantitative and predictive model of transcriptional control of the Drosophila melanogaster even skipped gene
    • 10.1038/ng1886, 16980977
    • Janssens H, Hou S, Jaeger J, Kim AR, Myasnikova E, Sharp D, Reinitz J. Quantitative and predictive model of transcriptional control of the Drosophila melanogaster even skipped gene. Nat Genet 2006, 38(10):1159-1165. 10.1038/ng1886, 16980977.
    • (2006) Nat Genet , vol.38 , Issue.10 , pp. 1159-1165
    • Janssens, H.1    Hou, S.2    Jaeger, J.3    Kim, A.R.4    Myasnikova, E.5    Sharp, D.6    Reinitz, J.7
  • 46
    • 0035115973 scopus 로고    scopus 로고
    • Registration of the expression patterns of Drosophila segmentation genes by two independent methods
    • 10.1093/bioinformatics/17.1.3, 11222257
    • Myasnikova E, Samsonova A, Kozlov K, Samsonova M, Reinitz J. Registration of the expression patterns of Drosophila segmentation genes by two independent methods. Bioinformatics 2001, 17:3-12. 10.1093/bioinformatics/17.1.3, 11222257.
    • (2001) Bioinformatics , vol.17 , pp. 3-12
    • Myasnikova, E.1    Samsonova, A.2    Kozlov, K.3    Samsonova, M.4    Reinitz, J.5
  • 47
    • 3142591896 scopus 로고    scopus 로고
    • A database for management of gene expression data in situ
    • 10.1093/bioinformatics/bth222, 15059825
    • Poustelnikova E, Pisarev A, Blagov M, Samsonova M, Reinitz J. A database for management of gene expression data in situ. Bioinformatics 2004, 20(14):2212-2221. 10.1093/bioinformatics/bth222, 15059825.
    • (2004) Bioinformatics , vol.20 , Issue.14 , pp. 2212-2221
    • Poustelnikova, E.1    Pisarev, A.2    Blagov, M.3    Samsonova, M.4    Reinitz, J.5
  • 48
    • 0342625542 scopus 로고    scopus 로고
    • Parallel simulated annealing by mixing of states
    • Chu KW, Deng Y, Reinitz J. Parallel simulated annealing by mixing of states. J Comput Phys 1999, 148(2):646-662.
    • (1999) J Comput Phys , vol.148 , Issue.2 , pp. 646-662
    • Chu, K.W.1    Deng, Y.2    Reinitz, J.3
  • 49
    • 0347794523 scopus 로고
    • An Efficient Simulated Annealing Schedule: Derivation
    • Electrical Engineering Department, Yale, New Haven, CT
    • Lam J, Delosme JM. An Efficient Simulated Annealing Schedule: Derivation. Tech Rep 8816 1988, Electrical Engineering Department, Yale, New Haven, CT.
    • (1988) Tech Rep 8816
    • Lam, J.1    Delosme, J.M.2
  • 50
    • 0347794523 scopus 로고
    • An Efficient Simulated Annealing Schedule: Implementation and Evaluation
    • Electrical Engineering Department, New Haven, CT
    • Lam J, Delosme JM. An Efficient Simulated Annealing Schedule: Implementation and Evaluation. Tech Rep 8817 1988, Electrical Engineering Department, New Haven, CT.
    • (1988) Tech Rep 8817
    • Lam, J.1    Delosme, J.M.2
  • 51
    • 36949015161 scopus 로고    scopus 로고
    • Efficient parameter estimation for spatio-temporal models of pattern formation: case study of Drosophila melanogaster
    • 10.1093/bioinformatics/btm433, 17893088
    • Fomekong-Nanfack Y, Kaandorp JA, Blom J. Efficient parameter estimation for spatio-temporal models of pattern formation: case study of Drosophila melanogaster. Bioinformatics 2007, 23(24):3356-3363. 10.1093/bioinformatics/btm433, 17893088.
    • (2007) Bioinformatics , vol.23 , Issue.24 , pp. 3356-3363
    • Fomekong-Nanfack, Y.1    Kaandorp, J.A.2    Blom, J.3
  • 52
    • 57049089078 scopus 로고    scopus 로고
    • Parameter estimation and determinability analysis applied to Drosophila gap gene circuits
    • 2586632, 18817540
    • Ashyraliyev M, Jaeger J, Blom JG. Parameter estimation and determinability analysis applied to Drosophila gap gene circuits. BMC Systems Biology 2008, 2(83). 2586632, 18817540.
    • (2008) BMC Systems Biology , vol.2 , Issue.83
    • Ashyraliyev, M.1    Jaeger, J.2    Blom, J.G.3
  • 53
    • 0027328670 scopus 로고
    • Is Morphogenesis an Intrinsically Robust Process?
    • 10.1006/jtbi.1993.1112, 8412239
    • Goodwin BC, Kauffman S, Murray JD. Is Morphogenesis an Intrinsically Robust Process?. Journal of Theoretical Biology 1993, 163:135-144. 10.1006/jtbi.1993.1112, 8412239.
    • (1993) Journal of Theoretical Biology , vol.163 , pp. 135-144
    • Goodwin, B.C.1    Kauffman, S.2    Murray, J.D.3
  • 54
    • 0035826777 scopus 로고    scopus 로고
    • A power law for cells
    • 10.1073/pnas.091485998, 33276, 11331756
    • Azevedo RB, Leroi AM. A power law for cells. Proc Natl Acad Sci USA 2001, 98(10):5699-5704. 10.1073/pnas.091485998, 33276, 11331756.
    • (2001) Proc Natl Acad Sci USA , vol.98 , Issue.10 , pp. 5699-5704
    • Azevedo, R.B.1    Leroi, A.M.2
  • 55
    • 38649137978 scopus 로고    scopus 로고
    • Master equation simulation analysis of immunostained Bicoid morphogen gradient
    • 10.1186/1752-0509-1-52, 2212647, 18021413
    • Wu YF, Myasnikova E, Reinitz J. Master equation simulation analysis of immunostained Bicoid morphogen gradient. BMC Syst Biol 2007, 1:52. 10.1186/1752-0509-1-52, 2212647, 18021413.
    • (2007) BMC Syst Biol , vol.1 , pp. 52
    • Wu, Y.F.1    Myasnikova, E.2    Reinitz, J.3
  • 56
    • 33645429016 scopus 로고
    • Exact stochastic simulation of coupled chemical reactions
    • Gillespie DT. Exact stochastic simulation of coupled chemical reactions. Journal of Physical Chemistry 1977, 81(22):2340-2361.
    • (1977) Journal of Physical Chemistry , vol.81 , Issue.22 , pp. 2340-2361
    • Gillespie, D.T.1
  • 57
    • 0023847985 scopus 로고
    • Regulation of the Drosophila segmentation gene hunchback by two maternal morphogenetic centres
    • 10.1038/332281a0, 2450283
    • Tautz D. Regulation of the Drosophila segmentation gene hunchback by two maternal morphogenetic centres. Nature 1988, 332(6161):281-284. 10.1038/332281a0, 2450283.
    • (1988) Nature , vol.332 , Issue.6161 , pp. 281-284
    • Tautz, D.1
  • 58
    • 0026062340 scopus 로고
    • Interactions of the Drosophila gap gene giant with maternal and zygotic pattern-forming genes
    • Eldon E, Pirrotta V. Interactions of the Drosophila gap gene giant with maternal and zygotic pattern-forming genes. Development 1991, 111(2):367-378.
    • (1991) Development , vol.111 , Issue.2 , pp. 367-378
    • Eldon, E.1    Pirrotta, V.2
  • 59
    • 36048980877 scopus 로고    scopus 로고
    • Robustness of embryonic spatial patterning in Drosophila melanogaster
    • full_text, 18023724
    • Umulis D, O'Connor MB, Othmer HG. Robustness of embryonic spatial patterning in Drosophila melanogaster. Curr Top Dev Biol 2008, 81:65-111. full_text, 18023724.
    • (2008) Curr Top Dev Biol , vol.81 , pp. 65-111
    • Umulis, D.1    O'Connor, M.B.2    Othmer, H.G.3
  • 60
    • 0035144988 scopus 로고    scopus 로고
    • Sensitivity analysis and parameter identifiability for colloid transport in geochemically heterogeneous porous media
    • Sun N, Sun NZ, Elimelech M, Ryan JN. Sensitivity analysis and parameter identifiability for colloid transport in geochemically heterogeneous porous media. Water Resources Research 2001, 37(2):209-222.
    • (2001) Water Resources Research , vol.37 , Issue.2 , pp. 209-222
    • Sun, N.1    Sun, N.Z.2    Elimelech, M.3    Ryan, J.N.4
  • 62
    • 0025999610 scopus 로고
    • Control and function of terminal gap gene activity in the posterior pole region of the Drosophila embryo
    • 10.1016/0925-4773(91)90019-3, 1768621
    • Bronner G, Jackle H. Control and function of terminal gap gene activity in the posterior pole region of the Drosophila embryo. Mech Dev 1991, 35(3):205-211. 10.1016/0925-4773(91)90019-3, 1768621.
    • (1991) Mech Dev , vol.35 , Issue.3 , pp. 205-211
    • Bronner, G.1    Jackle, H.2
  • 63
    • 0033593306 scopus 로고    scopus 로고
    • Molecular Bases for Circadian Clocks
    • 10.1016/S0092-8674(00)80566-8, 9988221
    • Dunlap JC. Molecular Bases for Circadian Clocks. Cell 1999, 96(2):271-290. 10.1016/S0092-8674(00)80566-8, 9988221.
    • (1999) Cell , vol.96 , Issue.2 , pp. 271-290
    • Dunlap, J.C.1
  • 64
    • 24144456230 scopus 로고    scopus 로고
    • Shake It, Don't Break It: Positive Feedback and the Evolution of Oscillator Design
    • 10.1016/j.devcel.2005.08.006, 16139219
    • Cross FR, Siggia ED. Shake It, Don't Break It: Positive Feedback and the Evolution of Oscillator Design. Developmental Cell 2005, 9(3):309-310. 10.1016/j.devcel.2005.08.006, 16139219.
    • (2005) Developmental Cell , vol.9 , Issue.3 , pp. 309-310
    • Cross, F.R.1    Siggia, E.D.2
  • 65
    • 33745589222 scopus 로고    scopus 로고
    • Modeling segmental patterning in Drosophila: Maternal and gap genes
    • 10.1016/j.jtbi.2005.11.034, 16427090
    • Alves F, Dilao R. Modeling segmental patterning in Drosophila: Maternal and gap genes. J Theor Biol 2006, 241(2):342-359. 10.1016/j.jtbi.2005.11.034, 16427090.
    • (2006) J Theor Biol , vol.241 , Issue.2 , pp. 342-359
    • Alves, F.1    Dilao, R.2
  • 66
    • 50249174034 scopus 로고    scopus 로고
    • Model with asymptotically stable dynamics for Drosophila gap gene network
    • Gursky V, Kozlov K, Samsonov A, Reinitz J. Model with asymptotically stable dynamics for Drosophila gap gene network. Biophysics 2008, 53(2):164-176.
    • (2008) Biophysics , vol.53 , Issue.2 , pp. 164-176
    • Gursky, V.1    Kozlov, K.2    Samsonov, A.3    Reinitz, J.4
  • 67
    • 0030215637 scopus 로고    scopus 로고
    • Gradients that organize embryo development
    • Nusslein-Volhard C. Gradients that organize embryo development. Sci Am 1996, 275(2):54-55.
    • (1996) Sci Am , vol.275 , Issue.2 , pp. 54-55
    • Nusslein-Volhard, C.1
  • 68
    • 29444460232 scopus 로고    scopus 로고
    • Diffusion and scaling during early embryonic pattern formation
    • 10.1073/pnas.0509483102, 1311912,1311912, 16352710
    • Gregor T, Bialek W, de Ruyter van Steveninck RR, Tank DW, Wieschaus EF. Diffusion and scaling during early embryonic pattern formation. Proc Natl Acad Sci USA 2005, 102(51):18403-18407. 10.1073/pnas.0509483102, 1311912,1311912, 16352710.
    • (2005) Proc Natl Acad Sci USA , vol.102 , Issue.51 , pp. 18403-18407
    • Gregor, T.1    Bialek, W.2    de Ruyter van Steveninck, R.R.3    Tank, D.W.4    Wieschaus, E.F.5
  • 69
    • 14844364430 scopus 로고    scopus 로고
    • Optimizing genetic circuits by global sensitivity analysis
    • 10.1529/biophysj.104.044131, 1304645, 15454422
    • Feng XJ, Hooshangi S, Chen D, Li G, Weiss R, Rabitz H. Optimizing genetic circuits by global sensitivity analysis. Biophys J 2004, 87(4):2195-2202. 10.1529/biophysj.104.044131, 1304645, 15454422.
    • (2004) Biophys J , vol.87 , Issue.4 , pp. 2195-2202
    • Feng, X.J.1    Hooshangi, S.2    Chen, D.3    Li, G.4    Weiss, R.5    Rabitz, H.6
  • 70
    • 0025361358 scopus 로고
    • Two gap genes mediate maternal terminal pattern information in Drosophila
    • 10.1126/science.2158673, 2158673
    • Weigel D, Jurgens G, Klingler M, Jackle H. Two gap genes mediate maternal terminal pattern information in Drosophila. Science 1990, 248(4954):495-498. 10.1126/science.2158673, 2158673.
    • (1990) Science , vol.248 , Issue.4954 , pp. 495-498
    • Weigel, D.1    Jurgens, G.2    Klingler, M.3    Jackle, H.4
  • 71
    • 33747848852 scopus 로고    scopus 로고
    • Advanced methods and algorithms for biological networks analysis
    • El-Samad H, Prajna SAP, Doyle J, Khammash M. Advanced methods and algorithms for biological networks analysis. Proc IEEE 2006, 94:832-853.
    • (2006) Proc IEEE , vol.94 , pp. 832-853
    • El-Samad, H.1    Prajna, S.A.P.2    Doyle, J.3    Khammash, M.4
  • 72
    • 27844594303 scopus 로고    scopus 로고
    • Barrier certificates for nonlinear model validation
    • Prajna S. Barrier certificates for nonlinear model validation. Automatica 2006, 42:117-126.
    • (2006) Automatica , vol.42 , pp. 117-126
    • Prajna, S.1
  • 73
    • 33751204469 scopus 로고    scopus 로고
    • Optimization of a stochastically simulated gene network model via simulated annealing
    • 10.1529/biophysj.106.083485, 1614480, 16920827
    • Tomshine J, Kaznessis YN. Optimization of a stochastically simulated gene network model via simulated annealing. Biophys J 2006, 91(9):3196-3205. 10.1529/biophysj.106.083485, 1614480, 16920827.
    • (2006) Biophys J , vol.91 , Issue.9 , pp. 3196-3205
    • Tomshine, J.1    Kaznessis, Y.N.2
  • 74
    • 70449482449 scopus 로고    scopus 로고
    • Inferring Drosophila gap gene regulatory network: pattern analysis of simulated gene expression profiles and stability analysis
    • Fomekong-Nanfack Y, Postma M, Kaandorp JA. Inferring Drosophila gap gene regulatory network: pattern analysis of simulated gene expression profiles and stability analysis. [To appear in BMC System Biology]
    • [To appear in BMC System Biology]
    • Fomekong-Nanfack, Y.1    Postma, M.2    Kaandorp, J.A.3
  • 75
    • 32044474451 scopus 로고    scopus 로고
    • A hybrid approach for efficient and robust parameter estimation in biochemical pathways
    • 10.1016/j.biosystems.2005.06.016, 16236429
    • Rodriguez-Fernandez M, Mendes P, Banga JR. A hybrid approach for efficient and robust parameter estimation in biochemical pathways. Biosystems 2006, 83(2-3):248-265. 10.1016/j.biosystems.2005.06.016, 16236429.
    • (2006) Biosystems , vol.83 , Issue.2-3 , pp. 248-265
    • Rodriguez-Fernandez, M.1    Mendes, P.2    Banga, J.R.3
  • 76
    • 58549110252 scopus 로고    scopus 로고
    • Stochastic modelling for quantitative description of heterogeneous biological systems
    • 10.1038/nrg2509, 19139763
    • Wilkinson DJ. Stochastic modelling for quantitative description of heterogeneous biological systems. Nat Rev Genet 2009, 10(2):122-133. 10.1038/nrg2509, 19139763.
    • (2009) Nat Rev Genet , vol.10 , Issue.2 , pp. 122-133
    • Wilkinson, D.J.1
  • 78
    • 18144363600 scopus 로고    scopus 로고
    • Engineering gene networks to emulate Drosophila embryonic pattern formation
    • 10.1371/journal.pbio.0030064, 1044831,1044831, 15736977
    • Isalan M, Lemerle C, Serrano L. Engineering gene networks to emulate Drosophila embryonic pattern formation. PLoS Biol 2005, 3(3):e64. 10.1371/journal.pbio.0030064, 1044831,1044831, 15736977.
    • (2005) PLoS Biol , vol.3 , Issue.3
    • Isalan, M.1    Lemerle, C.2    Serrano, L.3
  • 79
    • 34248385237 scopus 로고    scopus 로고
    • Multiobjective optimization in bioinformatics and computational biology
    • 10.1109/TCBB.2007.070203, 17473320
    • Handl J, Kell DB, Knowles J. Multiobjective optimization in bioinformatics and computational biology. IEEE/ACM Trans Comput Biol Bioinform 2007, 4(2):279-292. 10.1109/TCBB.2007.070203, 17473320.
    • (2007) IEEE/ACM Trans Comput Biol Bioinform , vol.4 , Issue.2 , pp. 279-292
    • Handl, J.1    Kell, D.B.2    Knowles, J.3
  • 82
    • 0001819989 scopus 로고
    • The application of genetic algorithms to resource scheduling
    • San Mateo, California.: Morgan Kaufmann Pub, Belew R, Booker L
    • Syswerda G, Palmucci J. The application of genetic algorithms to resource scheduling. Fourth Int Conf on Genetic Algorithms ICGA'4 1991, 502-508. San Mateo, California.: Morgan Kaufmann Pub, Belew R, Booker L.
    • (1991) Fourth Int Conf on Genetic Algorithms ICGA'4 , pp. 502-508
    • Syswerda, G.1    Palmucci, J.2
  • 83
    • 0000294949 scopus 로고
    • Application of genetic algorithms to task planning and learning
    • Amsterdam. North-Holland, Manner R, Manderick B
    • Jakob W, Gorges-Schleuter M, Blume C. Application of genetic algorithms to task planning and learning. Parallel Problem Solving from Nature PPSN'2, LNCS 1992, 291-300. Amsterdam. North-Holland, Manner R, Manderick B.
    • (1992) Parallel Problem Solving from Nature PPSN'2, LNCS , pp. 291-300
    • Jakob, W.1    Gorges-Schleuter, M.2    Blume, C.3
  • 84
    • 0006490426 scopus 로고
    • Searching databases of twodimensional and three-dimensional chemical structures using genetic algorithms
    • San Mateo, California.: Morgan Kaufmann, Forrest S
    • Jones G, Brown R, Clark D, Willett P, Glen R. Searching databases of twodimensional and three-dimensional chemical structures using genetic algorithms. Fifth Int. Conf. on Genetic Algorithms 1993, 597-602. San Mateo, California.: Morgan Kaufmann, Forrest S.
    • (1993) Fifth Int. Conf. on Genetic Algorithms , pp. 597-602
    • Jones, G.1    Brown, R.2    Clark, D.3    Willett, P.4    Glen, R.5
  • 88
    • 41949109225 scopus 로고    scopus 로고
    • Inference of biochemical network models in S-system using multiobjective optimization approach
    • 10.1093/bioinformatics/btn075, 18321886
    • Liu PK, Wang FS. Inference of biochemical network models in S-system using multiobjective optimization approach. Bioinformatics 2008, 24(8):1085-1092. 10.1093/bioinformatics/btn075, 18321886.
    • (2008) Bioinformatics , vol.24 , Issue.8 , pp. 1085-1092
    • Liu, P.K.1    Wang, F.S.2
  • 90
    • 0020531221 scopus 로고
    • Studies of nuclear and cytoplasmic behaviour during the five mitotic cycles that precede gastrulation in Drosophila embryogenesis
    • Foe VE, Alberts BM. Studies of nuclear and cytoplasmic behaviour during the five mitotic cycles that precede gastrulation in Drosophila embryogenesis. J Cell Sci 1983, 61:31-70.
    • (1983) J Cell Sci , vol.61 , pp. 31-70
    • Foe, V.E.1    Alberts, B.M.2
  • 92
    • 33750084488 scopus 로고    scopus 로고
    • Implementing generating set search methods for linearly constrained minimization
    • Department of Computer Science, College of William & Mary, [Revised July 2006]
    • Lewis RM, Shepherd A, Torczon V. Implementing generating set search methods for linearly constrained minimization. Tech Rep WM-CS-2005-01 2005, Department of Computer Science, College of William & Mary, [Revised July 2006].
    • (2005) Tech Rep WM-CS-2005-01
    • Lewis, R.M.1    Shepherd, A.2    Torczon, V.3
  • 93
    • 0026988817 scopus 로고
    • Genetic Algorithms
    • Holland JH. Genetic Algorithms. Sci Am 1992, 267:66-72.
    • (1992) Sci Am , vol.267 , pp. 66-72
    • Holland, J.H.1
  • 94
    • 0001144902 scopus 로고    scopus 로고
    • Efficient Exact Stochastic Simulation of Chemical Systems with Many Species and Many Channels
    • Gibson M, Bruck J. Efficient Exact Stochastic Simulation of Chemical Systems with Many Species and Many Channels. Journal of Physical Chemistry A 2000, 104(9):1876-1889.
    • (2000) Journal of Physical Chemistry A , vol.104 , Issue.9 , pp. 1876-1889
    • Gibson, M.1    Bruck, J.2
  • 95
    • 0031814029 scopus 로고    scopus 로고
    • Rapid preparation of a panel of polyclonal antibodies to Drosophila segmentation proteins
    • 10.1007/s004270050184, 9683745
    • Kosman D, Small S, Reinitz J. Rapid preparation of a panel of polyclonal antibodies to Drosophila segmentation proteins. Dev Genes Evol 1998, 208:290-294. 10.1007/s004270050184, 9683745.
    • (1998) Dev Genes Evol , vol.208 , pp. 290-294
    • Kosman, D.1    Small, S.2    Reinitz, J.3


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