메뉴 건너뛰기




Volumn 21, Issue 12, 2011, Pages 1541-1553

Systems glycobiology: Biochemical reaction networks regulating glycan structure and function

Author keywords

in silico simulation; leukocyte endothelium interaction; O glycans; optimization; systems biology

Indexed keywords

GLYCAN;

EID: 81855194825     PISSN: 09596658     EISSN: 14602423     Source Type: Journal    
DOI: 10.1093/glycob/cwr036     Document Type: Review
Times cited : (37)

References (98)
  • 1
    • 0032464047 scopus 로고    scopus 로고
    • Characterization of the O-linked oligosaccharide structures on P-selectin glycoprotein ligand-1 (PSGL-1)
    • DOI 10.1023/A:1006985825141
    • Aeed PA, Geng JG, Asa D, Raycroft L, Ma L, Elhammer AP. 1998. Characterization of the O-linked oligosaccharide structures on P-selectin glycoprotein ligand-1 (PSGL-1). Glycoconj J, 15, 975-985. (Pubitemid 29129198)
    • (1998) Glycoconjugate Journal , vol.15 , Issue.10 , pp. 975-985
    • Aeed, P.A.1    Geng, J.-G.2    Asa, D.3    Raycroft, L.4    Ma, L.5    Elhammer, A.P.6
  • 2
    • 71549131604 scopus 로고    scopus 로고
    • Discrete dynamic modeling of cellular signaling networks
    • Albert R, Wang RS. 2009. Discrete dynamic modeling of cellular signaling networks. Methods Enzymol, 467, 281-306.
    • (2009) Methods Enzymol , vol.467 , pp. 281-306
    • Albert, R.1    Wang, R.S.2
  • 3
    • 33750533388 scopus 로고    scopus 로고
    • Physicochemical modelling of cell signalling pathways
    • DOI 10.1038/ncb1497, PII NCB1497
    • Aldridge BB, Burke JM, Lauffenburger DA, Sorger PK. 2006. Physicochemical modelling of cell signalling pathways. Nat Cell Biol, 8, 1195-1203. (Pubitemid 44660581)
    • (2006) Nature Cell Biology , vol.8 , Issue.11 , pp. 1195-1203
    • Aldridge, B.B.1    Burke, J.M.2    Lauffenburger, D.A.3    Sorger, P.K.4
  • 5
    • 44949258057 scopus 로고    scopus 로고
    • An introduction to bioinformatics for glycomics research
    • Aoki-Kinoshita KF. 2008. An introduction to bioinformatics for glycomics research. PLoS Comput Biol, 4, e1000075.
    • (2008) PLoS Comput Biol , vol.4
    • Aoki-Kinoshita, K.F.1
  • 6
    • 0032754473 scopus 로고    scopus 로고
    • On the frequency of protein glycosylation, as deduced from analysis of the SWISS-PROT database
    • Apweiler R, Hermjakob H, Sharon N. 1999. On the frequency of protein glycosylation, as deduced from analysis of the SWISS-PROT database. Biochim Biophys Acta, 1473, 4-8.
    • (1999) Biochim Biophys Acta , vol.1473 , pp. 4-8
    • Apweiler, R.1    Hermjakob, H.2    Sharon, N.3
  • 7
    • 57049089078 scopus 로고    scopus 로고
    • Parameter estimation and determinability analysis applied to Drosophila gap gene circuits
    • Ashyraliyev M, Jaeger J, Blom JG. 2008. Parameter estimation and determinability analysis applied to Drosophila gap gene circuits. BMC Syst Biol, 2, 83.
    • (2008) BMC Syst Biol , vol.2 , pp. 83
    • Ashyraliyev, M.1    Jaeger, J.2    Blom, J.G.3
  • 8
    • 33646124974 scopus 로고    scopus 로고
    • Bistability in apoptosis: Roles of bax, bcl-2, and mitochondrial permeability transition pores
    • Bagci EZ, Vodovotz Y, Billiar TR, Ermentrout GB, Bahar I. 2006. Bistability in apoptosis: roles of bax, bcl-2, and mitochondrial permeability transition pores. Biophys J, 90, 1546-1559.
    • (2006) Biophys J , vol.90 , pp. 1546-1559
    • Bagci, E.Z.1    Vodovotz, Y.2    Billiar, T.R.3    Ermentrout, G.B.4    Bahar, I.5
  • 9
    • 46349105936 scopus 로고    scopus 로고
    • Optimization in computational systems biology
    • Banga JR. 2008. Optimization in computational systems biology. BMC Syst Biol, 2, 47.
    • (2008) BMC Syst Biol , vol.2 , pp. 47
    • Banga, J.R.1
  • 10
    • 0037047611 scopus 로고    scopus 로고
    • MAP kinase phosphatase as a locus of flexibility in a mitogen-activated protein kinase signaling network
    • DOI 10.1126/science.1068873
    • Bhalla US, Ram PT, Iyengar R. 2002. MAP kinase phosphatase as a locus of flexibility in a mitogen-activated protein kinase signaling network. Science, 297, 1018-1023. (Pubitemid 34856036)
    • (2002) Science , vol.297 , Issue.5583 , pp. 1018-1023
    • Bhalla, U.S.1    Ram, P.T.2    Iyengar, R.3
  • 13
    • 19544365104 scopus 로고    scopus 로고
    • Gene-Expression Omnibus integration and clustering tools in SeqExpress
    • DOI 10.1093/bioinformatics/bti355
    • Boyle J. 2005. Gene-Expression Omnibus integration and clustering tools in SeqExpress. Bioinformatics, 21, 2550-2551. (Pubitemid 40731624)
    • (2005) Bioinformatics , vol.21 , Issue.10 , pp. 2550-2551
    • Boyle, J.1
  • 14
    • 0038070188 scopus 로고    scopus 로고
    • Adjoint sensitivity analysis or differential-algebraic equations: The adjoint DAE system and its numerical solution
    • Siam
    • Cao Y, Li ST, Petzold L, Serban R. 2003. Adjoint sensitivity analysis or differential-algebraic equations: The adjoint DAE system and its numerical solution. Siam Journal on Scientific Computing, 24, 1076-1089.
    • (2003) Journal on Scientific Computing , vol.24 , pp. 1076-1089
    • Cao, Y.1    Li, S.T.2    Petzold, L.3    Serban, R.4
  • 15
    • 58149185126 scopus 로고    scopus 로고
    • BRENDA AMENDA and FRENDA the enzyme information system: New content and tools in 2009
    • Chang A, Scheer M, Grote A, Schomburg I, Schomburg D. 2009. BRENDA, AMENDA and FRENDA the enzyme information system: new content and tools in 2009. Nucleic Acids Res, 37, D588-592.
    • (2009) Nucleic Acids Res , vol.37
    • Chang, A.1    Scheer, M.2    Grote, A.3    Schomburg, I.4    Schomburg, D.5
  • 16
    • 34250217743 scopus 로고    scopus 로고
    • Multiplexed analysis of glycan variation on native proteins captured by antibody microarrays
    • DOI 10.1038/nmeth1035, PII NMETH1035
    • Chen S, LaRoche T, Hamelinck D, Bergsma D, Brenner D, Simeone D, Brand RE, Haab BB. 2007. Multiplexed analysis of glycan variation on native proteins captured by antibody microarrays. Nat Methods, 4, 437-444. (Pubitemid 46901278)
    • (2007) Nature Methods , vol.4 , Issue.5 , pp. 437-444
    • Chen, S.1    LaRoche, T.2    Hamelinck, D.3    Bergsma, D.4    Brenner, D.5    Simeone, D.6    Brand, R.E.7    Haab, B.B.8
  • 18
    • 0037250530 scopus 로고    scopus 로고
    • GlycoSuiteDB: A curated relational database of glycoprotein glycan structures and their biological sources. 2003 update
    • DOI 10.1093/nar/gkg099
    • Cooper CA, Joshi HJ, Harrison MJ, Wilkins MR, Packer NH. 2003. GlycoSuiteDB: a curated relational database of glycoprotein glycan structures and their biological sources. 2003 update. Nucleic Acids Res, 31, 511-513. (Pubitemid 36150442)
    • (2003) Nucleic Acids Research , vol.31 , Issue.1 , pp. 511-513
    • Cooper, C.A.1    Joshi, H.J.2    Harrison, M.J.3    Wilkins, M.R.4    Packer, N.H.5
  • 19
    • 33748058888 scopus 로고    scopus 로고
    • Bistability in bacteria
    • DOI 10.1111/j.1365-2958.2006.05249.x
    • Dubnau D, Losick R. 2006. Bistability in bacteria. Mol Microbiol, 61, 564-572. (Pubitemid 44324084)
    • (2006) Molecular Microbiology , vol.61 , Issue.3 , pp. 564-572
    • Dubnau, D.1    Losick, R.2
  • 20
    • 0011924251 scopus 로고    scopus 로고
    • Simulating, analyzing, and animating dynamical systems : A guide to XPPAUT for researchers and students
    • Ermentrout B. 2002. Simulating, analyzing, and animating dynamical systems : a guide to XPPAUT for researchers and students. Society for Industrial and Applied Mathematics, Philadelphia.
    • (2002) Society for Industrial and Applied Mathematics, Philadelphia
    • Ermentrout, B.1
  • 21
    • 0036532226 scopus 로고    scopus 로고
    • Self-perpetuating states in signal transduction: Positive feedback, double-negative feedback and bistability
    • DOI 10.1016/S0955-0674(02)00314-9
    • Ferrell JE, Jr. 2002. Self-perpetuating states in signal transduction: positive feedback, double-negative feedback and bistability. Curr Opin Cell Biol, 14, 140-148. (Pubitemid 34219501)
    • (2002) Current Opinion in Cell Biology , vol.14 , Issue.2 , pp. 140-148
    • Ferrell Jr., J.E.1
  • 22
    • 77955714199 scopus 로고    scopus 로고
    • Bioinformatics and molecular modeling in glycobiology
    • Frank M, Schloissnig S. 2010. Bioinformatics and molecular modeling in glycobiology. Cell Mol Life Sci, 67, 2749-2772.
    • (2010) Cell Mol Life Sci , vol.67 , pp. 2749-2772
    • Frank, M.1    Schloissnig, S.2
  • 23
    • 34250903593 scopus 로고    scopus 로고
    • Congenital disorders of glycosylation: CDG-I, CDG-II, and beyond
    • DOI 10.2174/156652407780831548
    • Freeze HH. 2007. Congenital Disorders of Glycosylation: CDG-I, CDG-II, and beyond. Curr Mol Med, 7, 389-396. (Pubitemid 46979703)
    • (2007) Current Molecular Medicine , vol.7 , Issue.4 , pp. 389-396
    • Freeze, H.H.1
  • 26
    • 1842531413 scopus 로고    scopus 로고
    • Kinetic Modeling Confirms the Biosynthesis of Mucin Core 1 (β-Ga1(1-3) α-Ga1NAc-O-Ser/Thr) O-glycan Structures Are Modulated by Neighboring Glycosylation Effects
    • DOI 10.1021/bi036306a
    • Gerken TA. 2004. Kinetic modeling confirms the biosynthesis of mucin core 1 (beta-Gal(1-3) alpha-GalNAc-O-Ser/Thr) O-glycan structures are modulated by neighboring glycosylation effects. Biochemistry, 43, 4137-4142. (Pubitemid 38445633)
    • (2004) Biochemistry , vol.43 , Issue.14 , pp. 4137-4142
    • Gerken, T.A.1
  • 29
    • 45049086740 scopus 로고    scopus 로고
    • GlycoCT-a unifying sequence format for carbohydrates
    • Herget S, Ranzinger R, Maass K, Lieth CW. 2008. GlycoCT-a unifying sequence format for carbohydrates. Carbohydr Res, 343, 2162-2171.
    • (2008) Carbohydr Res , vol.343 , pp. 2162-2171
    • Herget, S.1    Ranzinger, R.2    Maass, K.3    Lieth, C.W.4
  • 31
    • 24644456999 scopus 로고    scopus 로고
    • Control of MAPK signalling: From complexity to what really matters
    • DOI 10.1038/sj.onc.1208817, PII 1208817
    • Hornberg JJ, Binder B, Bruggeman FJ, Schoeberl B, Heinrich R, Westerhoff HV. 2005. Control of MAPK signalling: from complexity to what really matters. Oncogene, 24, 5533-5542. (Pubitemid 43119348)
    • (2005) Oncogene , vol.24 , Issue.36 , pp. 5533-5542
    • Hornberg, J.J.1    Binder, B.2    Bruggeman, F.J.3    Schoeberl, B.4    Heinrich, R.5    Westerhoff, H.V.6
  • 32
    • 40249093192 scopus 로고    scopus 로고
    • Systems analysis of N-glycan processing in mammalian cells
    • Hossler P, Mulukutla BC, Hu WS. 2007. Systems analysis of N-glycan processing in mammalian cells. PLoS One, 2, e713.
    • (2007) PLoS One , vol.2
    • Hossler, P.1    Mulukutla, B.C.2    Hu, W.S.3
  • 33
    • 70349111793 scopus 로고    scopus 로고
    • Sweet tasting chips: Microarray-based analysis of glycans
    • Hsu KL, Mahal LK. 2009. Sweet tasting chips: microarray-based analysis of glycans. Curr Opin Chem Biol, 13, 427-432.
    • (2009) Curr Opin Chem Biol , vol.13 , pp. 427-432
    • Hsu, K.L.1    Mahal, L.K.2
  • 36
    • 0347122079 scopus 로고    scopus 로고
    • CIBEX: Center for information biology gene EXpression database
    • DOI 10.1016/j.crvi.2003.09.034
    • Ikeo K, Ishi-i J, Tamura T, Gojobori T, Tateno Y. 2003. CIBEX: center for information biology gene expression database. C R Biol, 326, 1079-1082. (Pubitemid 38016464)
    • (2003) Comptes Rendus - Biologies , vol.326 , Issue.10-11 , pp. 1079-1082
    • Ikeo, K.1    Ishi-i, J.2    Tamura, T.3    Gojobori, T.4    Tateno, Y.5
  • 38
    • 35548972537 scopus 로고    scopus 로고
    • Congenital disorders of glycosylation: A rapidly expanding disease family
    • Jaeken J, Matthijs G. 2007. Congenital disorders of glycosylation: a rapidly expanding disease family. Annu Rev Genomics Hum Genet, 8, 261-278.
    • (2007) Annu Rev Genomics Hum Genet , vol.8 , pp. 261-278
    • Jaeken, J.1    Matthijs, G.2
  • 39
    • 77954506026 scopus 로고    scopus 로고
    • Role of glycans and glycosyltransferases in the regulation of Notch signaling
    • Jafar-Nejad H, Leonardi J, Fernandez-Valdivia R. 2010. Role of glycans and glycosyltransferases in the regulation of Notch signaling. Glycobiology, 20, 931-949.
    • (2010) Glycobiology , vol.20 , pp. 931-949
    • Jafar-Nejad, H.1    Leonardi, J.2    Fernandez-Valdivia, R.3
  • 40
    • 33750351769 scopus 로고    scopus 로고
    • Data-driven modelling of signal-transduction networks
    • DOI 10.1038/nrm2041, PII NRM2041
    • Janes KA, Yaffe MB. 2006. Data-driven modelling of signal-transduction networks. Nat Rev Mol Cell Biol, 7, 820-828. (Pubitemid 44627475)
    • (2006) Nature Reviews Molecular Cell Biology , vol.7 , Issue.11 , pp. 820-828
    • Janes, K.A.1    Yaffe, M.B.2
  • 41
    • 70349507335 scopus 로고    scopus 로고
    • Detection of site-specific glycosylation in proteins using flow cytometry
    • Jayakumar D, Marathe DD, Neelamegham S. 2009. Detection of site-specific glycosylation in proteins using flow cytometry. Cytometry A, 75, 866-873.
    • (2009) Cytometry A , vol.75 , pp. 866-873
    • Jayakumar, D.1    Marathe, D.D.2    Neelamegham, S.3
  • 42
    • 17444418684 scopus 로고    scopus 로고
    • The carbohydrate sequence markup language (CabosML): An XML description of carbohydrate structures
    • DOI 10.1093/bioinformatics/bti152
    • Kikuchi N, Kameyama A, Nakaya S, Ito H, Sato T, Shikanai T, Takahashi Y, Narimatsu H. 2005. The carbohydrate sequence markup language (CabosML): an XML description of carbohydrate structures. Bioinformatics, 21, 1717-1718. (Pubitemid 40542741)
    • (2005) Bioinformatics , vol.21 , Issue.8 , pp. 1717-1718
    • Kikuchi, N.1    Kameyama, A.2    Nakaya, S.3    Ito, H.4    Sato, T.5    Shikanai, T.6    Takahashi, Y.7    Narimatsu, H.8
  • 43
    • 70350114562 scopus 로고    scopus 로고
    • Centralized modularity of N-linked glycosylation pathways in mammalian cells
    • Kim PJ, Lee DY, Jeong H. 2009. Centralized modularity of N-linked glycosylation pathways in mammalian cells. PLoS One, 4, e7317.
    • (2009) PLoS One , vol.4
    • Kim, P.J.1    Lee, D.Y.2    Jeong, H.3
  • 44
    • 7644238181 scopus 로고    scopus 로고
    • Biological robustness
    • DOI 10.1038/nrg1471
    • Kitano H. 2004. Biological robustness. Nat Rev Genet, 5, 826-837. (Pubitemid 39457498)
    • (2004) Nature Reviews Genetics , vol.5 , Issue.11 , pp. 826-837
    • Kitano, H.1
  • 45
    • 33750735728 scopus 로고    scopus 로고
    • Depicting combinatorial complexity with the molecular interaction map notation
    • Kohn KW, Aladjem MI, Kim S, Weinstein JN, Pommier Y. 2006. Depicting combinatorial complexity with the molecular interaction map notation. Mol Syst Biol, 2, 51.
    • (2006) Mol Syst Biol , vol.2 , pp. 51
    • Kohn, K.W.1    Aladjem, M.I.2    Kim, S.3    Weinstein, J.N.4    Pommier, Y.5
  • 46
    • 70349978981 scopus 로고    scopus 로고
    • A mathematical model to derive N-glycan structures and cellular enzyme activities from mass spectrometric data
    • Krambeck FJ, Bennun SV, Narang S, Choi S, Yarema KJ, Betenbaugh MJ. 2009. A mathematical model to derive N-glycan structures and cellular enzyme activities from mass spectrometric data. Glycobiology, 19, 1163-1175.
    • (2009) Glycobiology , vol.19 , pp. 1163-1175
    • Krambeck, F.J.1    Bennun, S.V.2    Narang, S.3    Choi, S.4    Yarema, K.J.5    Betenbaugh, M.J.6
  • 47
    • 28844473175 scopus 로고    scopus 로고
    • A mathematical model of N-linked glycosylation
    • DOI 10.1002/bit.20645
    • Krambeck FJ, Betenbaugh MJ. 2005. A mathematical model of N-linked glycosylation. Biotechnol Bioeng, 92, 711-728. (Pubitemid 41772467)
    • (2005) Biotechnology and Bioengineering , vol.92 , Issue.6 , pp. 711-728
    • Krambeck, F.J.1    Betenbaugh, M.J.2
  • 48
    • 59149091977 scopus 로고    scopus 로고
    • Focused differential glycan analysis with the platform antibody-assisted lectin profiling for glycan-related biomarker verification
    • Kuno A, Kato Y, Matsuda A, Kaneko MK, Ito H, Amano K, Chiba Y, Narimatsu H, Hirabayashi J. 2009. Focused differential glycan analysis with the platform antibody-assisted lectin profiling for glycan-related biomarker verification. Mol Cell Proteomics, 8, 99-108.
    • (2009) Mol Cell Proteomics , vol.8 , pp. 99-108
    • Kuno, A.1    Kato, Y.2    Matsuda, A.3    Kaneko, M.K.4    Ito, H.5    Amano, K.6    Chiba, Y.7    Narimatsu, H.8    Hirabayashi, J.9
  • 49
    • 33947724303 scopus 로고    scopus 로고
    • Complex N-Glycan Number and Degree of Branching Cooperate to Regulate Cell Proliferation and Differentiation
    • DOI 10.1016/j.cell.2007.01.049, PII S0092867407003157
    • Lau KS, Partridge EA, Grigorian A, Silvescu CI, Reinhold VN, Demetriou M, Dennis JW. 2007. Complex N-glycan number and degree of branching cooperate to regulate cell proliferation and differentiation. Cell, 129, 123-134. (Pubitemid 46507588)
    • (2007) Cell , vol.129 , Issue.1 , pp. 123-134
    • Lau, K.S.1    Partridge, E.A.2    Grigorian, A.3    Silvescu, C.I.4    Reinhold, V.N.5    Demetriou, M.6    Dennis, J.W.7
  • 51
    • 56649094580 scopus 로고    scopus 로고
    • Systems-level modeling of cellular glycosylation reaction networks: O-linked glycan formation on natural selectin ligands
    • DOI 10.1093/bioinformatics/btn515
    • Liu G, Marathe DD, Matta KL, Neelamegham S. 2008. Systems-level modeling of cellular glycosylation reaction networks: O-linked glycan formation on natural selectin ligands. Bioinformatics, 24, 2740-2747. (Pubitemid 352722617)
    • (2008) Bioinformatics , vol.24 , Issue.23 , pp. 2740-2747
    • Liu, G.1    Marathe, D.D.2    Matta, K.L.3    Neelamegham, S.4
  • 52
    • 41949134459 scopus 로고    scopus 로고
    • In silico biochemical reaction network analysis (IBRENA): A package for simulation and analysis of reaction networks
    • DOI 10.1093/bioinformatics/btn061
    • Liu G, Neelamegham S. 2008. In silico Biochemical Reaction Network Analysis (IBRENA): a package for simulation and analysis of reaction networks. Bioinformatics, 24, 1109-1111. (Pubitemid 351514065)
    • (2008) Bioinformatics , vol.24 , Issue.8 , pp. 1109-1111
    • Liu, G.1    Neelamegham, S.2
  • 53
    • 16344394782 scopus 로고    scopus 로고
    • Sensitivity, principal component and flux analysis applied to signal transduction: The case of epidermal growth factor mediated signaling
    • DOI 10.1093/bioinformatics/bti118
    • Liu G, Swihart MT, Neelamegham S. 2005. Sensitivity, principal component and flux analysis applied to signal transduction: the case of epidermal growth factor mediated signaling. Bioinformatics, 21, 1194-1202. (Pubitemid 40467945)
    • (2005) Bioinformatics , vol.21 , Issue.7 , pp. 1194-1202
    • Liu, G.1    Swihart, M.T.2    Neelamegham, S.3
  • 54
    • 38949097050 scopus 로고    scopus 로고
    • Informatic innovations in glycobiology: relevance to drug discovery
    • DOI 10.1016/j.drudis.2007.10.013, PII S1359644607004278
    • Mamitsuka H. 2008. Informatic innovations in glycobiology: relevance to drug discovery. Drug Discov Today, 13, 118-123. (Pubitemid 351215951)
    • (2008) Drug Discovery Today , vol.13 , Issue.3-4 , pp. 118-123
    • Mamitsuka, H.1
  • 55
    • 57349199782 scopus 로고    scopus 로고
    • Systems-level studies of glycosyltransferase gene expression and enzyme activity that are associated with the selectin binding function of human leukocytes
    • Marathe DD, Chandrasekaran EV, Lau JT, Matta KL, Neelamegham S. 2008. Systems-level studies of glycosyltransferase gene expression and enzyme activity that are associated with the selectin binding function of human leukocytes. Faseb J, 22, 4154-4167.
    • (2008) Faseb J , vol.22 , pp. 4154-4167
    • Marathe, D.D.1    Chandrasekaran, E.V.2    Lau, J.T.3    Matta, K.L.4    Neelamegham, S.5
  • 56
    • 0842288229 scopus 로고    scopus 로고
    • Signaling switches and bistability arising from multisite phosphorylation in protein kinase cascades
    • DOI 10.1083/jcb.200308060
    • Markevich NI, Hoek JB, Kholodenko BN. 2004. Signaling switches and bistability arising from multisite phosphorylation in protein kinase cascades. J Cell Biol, 164, 353-359. (Pubitemid 38174763)
    • (2004) Journal of Cell Biology , vol.164 , Issue.3 , pp. 353-359
    • Markevich, N.I.1    Hoek, J.B.2    Kholodenko, B.N.3
  • 57
    • 0030854107 scopus 로고    scopus 로고
    • Perspectives series: Cell adhesion in vascular biology. Role of PSGL-1 binding to selectins in leukocyte recruitment
    • McEver RP, Cummings RD. 1997. Perspectives series: cell adhesion in vascular biology. Role of PSGL-1 binding to selectins in leukocyte recruitment. J Clin Invest, 100, 485-491.
    • (1997) J Clin Invest , vol.100 , pp. 485-491
    • McEver, R.P.1    Cummings, R.D.2
  • 58
    • 65549136329 scopus 로고    scopus 로고
    • Glycomic analysis by capillary electrophoresis-mass spectrometry
    • Mechref Y, Novotny MV. 2009. Glycomic analysis by capillary electrophoresis-mass spectrometry. Mass Spectrom Rev, 28, 207-222.
    • (2009) Mass Spectrom Rev , vol.28 , pp. 207-222
    • Mechref, Y.1    Novotny, M.V.2
  • 59
    • 0242574982 scopus 로고    scopus 로고
    • Parameter estimation in biochemical pathways: A comparison of global optimization methods
    • DOI 10.1101/gr.1262503
    • Moles CG, Mendes P, Banga JR. 2003. Parameter estimation in biochemical pathways: a comparison of global optimization methods. Genome Res, 13, 2467-2474. (Pubitemid 37428271)
    • (2003) Genome Research , vol.13 , Issue.11 , pp. 2467-2474
    • Moles, C.G.1    Mendes, P.2    Banga, J.R.3
  • 60
    • 0030925676 scopus 로고    scopus 로고
    • A mathematical model of sialylation of N-linked oligosaccharides in the trans-Golgi network
    • DOI 10.1093/glycob/7.4.515
    • Monica TJ, Andersen DC, Goochee CF. 1997. A mathematical model of sialylation of N-linked oligosaccharides in the trans-Golgi network. Glycobiology, 7, 515-521. (Pubitemid 27246725)
    • (1997) Glycobiology , vol.7 , Issue.4 , pp. 515-521
    • Monica, T.J.1    Andersen, D.C.2    Goochee, C.F.3
  • 62
    • 47749097124 scopus 로고    scopus 로고
    • Regulation of glycan structures in animal tissues: Transcript profiling of glycan-related genes
    • Nairn AV, York WS, Harris K, Hall EM, Pierce JM, Moremen KW. 2008. Regulation of glycan structures in animal tissues: transcript profiling of glycan-related genes. J Biol Chem, 283, 17298-17313.
    • (2008) J Biol Chem , vol.283 , pp. 17298-17313
    • Nairn, A.V.1    York, W.S.2    Harris, K.3    Hall, E.M.4    Pierce, J.M.5    Moremen, K.W.6
  • 63
    • 4043175659 scopus 로고    scopus 로고
    • Transport features, reaction kinetics and receptor biomechanics controlling selectin and integrin mediated cell adhesion
    • DOI 10.1080/15419060490471793
    • Neelamegham S. 2004. Transport features, reaction kinetics and receptor biomechanics controlling selectin and integrin mediated cell adhesion. Cell Commun Adhes, 11, 35-50. (Pubitemid 39069729)
    • (2004) Cell Communication and Adhesion , vol.11 , Issue.1 , pp. 35-50
    • Neelamegham, S.1
  • 64
    • 33845451529 scopus 로고    scopus 로고
    • Resources for integrative systems biology: From data through databases to networks and dynamic system models
    • DOI 10.1093/bib/bbl036
    • Ng A, Bursteinas B, Gao Q, Mollison E, Zvelebil M. 2006. Resources for integrative systems biology: from data through databases to networks and dynamic system models. Brief Bioinform, 7, 318-330. (Pubitemid 44896735)
    • (2006) Briefings in Bioinformatics , vol.7 , Issue.4 , pp. 318-330
    • Ng, A.1    Bursteinas, B.2    Gao, Q.3    Mollison, E.4    Zvelebil, M.5
  • 65
    • 34250673643 scopus 로고    scopus 로고
    • Sensitivity and control analysis of periodically forced reaction networks using the Green's function method
    • DOI 10.1016/j.jtbi.2007.02.013, PII S0022519307000859
    • Nikolaev EV, Atlas JC, Shuler ML. 2007. Sensitivity and control analysis of periodically forced reaction networks using the Green's function method. J Theor Biol, 247, 442-461. (Pubitemid 46938641)
    • (2007) Journal of Theoretical Biology , vol.247 , Issue.3 , pp. 442-461
    • Nikolaev, E.V.1    Atlas, J.C.2    Shuler, M.L.3
  • 66
    • 70349275888 scopus 로고    scopus 로고
    • Mass spectrometry in the analysis of N-linked and O-linked glycans
    • North SJ, Hitchen PG, Haslam SM, Dell A. 2009. Mass spectrometry in the analysis of N-linked and O-linked glycans. Curr Opin Struct Biol, 19, 498-506.
    • (2009) Curr Opin Struct Biol , vol.19 , pp. 498-506
    • North, S.J.1    Hitchen, P.G.2    Haslam, S.M.3    Dell, A.4
  • 68
    • 1442354192 scopus 로고    scopus 로고
    • Multistability in the lactose utilization network of Escherichia coli
    • DOI 10.1038/nature02298
    • Ozbudak EM, Thattai M, Lim HN, Shraiman BI, Van Oudenaarden A. 2004. Multistability in the lactose utilization network of Escherichia coli. Nature, 427, 737-740. (Pubitemid 38294592)
    • (2004) Nature , vol.427 , Issue.6976 , pp. 737-740
    • Ozbudak, E.M.1    Thattal, M.2    Lim, H.H.3    Shraiman, B.I.4    Van Oudenaarden, A.5
  • 70
    • 30044437327 scopus 로고    scopus 로고
    • Evolutionary programming as a platform for in silico metabolic engineering
    • Patil KR, Rocha I, Forster J, Nielsen J. 2005. Evolutionary programming as a platform for in silico metabolic engineering. BMC Bioinformatics, 6, 308.
    • (2005) BMC Bioinformatics , vol.6 , pp. 308
    • Patil, K.R.1    Rocha, I.2    Forster, J.3    Nielsen, J.4
  • 74
    • 34848893336 scopus 로고    scopus 로고
    • Bistability and oscillations in the Huang-Ferrell model of MAPK signaling
    • DOI 10.1371/journal.pcbi.0030184
    • Qiao L, Nachbar RB, Kevrekidis IG, Shvartsman SY. 2007. Bistability and oscillations in the Huang-Ferrell model of MAPK signaling. PLoS Comput Biol, 3, 1819-1826. (Pubitemid 47502986)
    • (2007) PLoS Computational Biology , vol.3 , Issue.9 , pp. 1819-1826
    • Qiao, L.1    Nachbar, R.B.2    Kevrekidis, I.G.3    Shvartsman, S.Y.4
  • 76
    • 28544444249 scopus 로고    scopus 로고
    • Glycomics: An integrated systems approach to structure-function relationships of glycans
    • DOI 10.1038/nmeth807, PII N807
    • Raman R, Raguram S, Venkataraman G, Paulson JC, Sasisekharan R. 2005. Glycomics: an integrated systems approach to structure-function relationships of glycans. Nat Methods, 2, 817-824. (Pubitemid 41741530)
    • (2005) Nature Methods , vol.2 , Issue.11 , pp. 817-824
    • Raman, R.1    Raguram, S.2    Venkataraman, G.3    Paulson, J.C.4    Sasisekharan, R.5
  • 77
    • 71049172430 scopus 로고    scopus 로고
    • Glycome-DB.org: A portal for querying across the digital world of carbohydrate sequences
    • Ranzinger R, Frank M, von der Lieth CW, Herget S. 2009. Glycome-DB.org: a portal for querying across the digital world of carbohydrate sequences. Glycobiology, 19, 1563-1567.
    • (2009) Glycobiology , vol.19 , pp. 1563-1567
    • Ranzinger, R.1    Frank, M.2    Von Der Lieth, C.W.3    Herget, S.4
  • 78
    • 33646185696 scopus 로고    scopus 로고
    • Genome-wide oscillation of transcription in yeast
    • Reinke H, Gatfield D. 2006. Genome-wide oscillation of transcription in yeast. Trends Biochem Sci, 31, 189-191.
    • (2006) Trends Biochem Sci , vol.31 , pp. 189-191
    • Reinke, H.1    Gatfield, D.2
  • 79
    • 33947623106 scopus 로고    scopus 로고
    • SBMLeditor: Effective creation of models in the Systems Biology Markup language (SBML)
    • Rodriguez N, Donizelli M, Le Novere N. 2007. SBMLeditor: effective creation of models in the Systems Biology Markup language (SBML). BMC Bioinformatics, 8, 79.
    • (2007) BMC Bioinformatics , vol.8 , pp. 79
    • Rodriguez, N.1    Donizelli, M.2    Le Novere, N.3
  • 81
    • 67649786655 scopus 로고    scopus 로고
    • Glycosyltransferase-programmed stereosubstitution (GPS) to create HCELL: Engineering a roadmap for cell migration
    • Sackstein R. 2009. Glycosyltransferase-programmed stereosubstitution (GPS) to create HCELL: engineering a roadmap for cell migration. Immunol Rev, 230, 51-74.
    • (2009) Immunol Rev , vol.230 , pp. 51-74
    • Sackstein, R.1
  • 82
    • 28444485613 scopus 로고    scopus 로고
    • GLYDE - An expressive XML standard for the representation of glycan structure
    • DOI 10.1016/j.carres.2005.09.019, PII S000862150500443X
    • Sahoo SS, Thomas C, Sheth A, Henson C, York WS. 2005. GLYDE-an expressive XML standard for the representation of glycan structure. Carbohydr Res, 340, 2802-2807. (Pubitemid 41735367)
    • (2005) Carbohydrate Research , vol.340 , Issue.18 , pp. 2802-2807
    • Sahoo, S.S.1    Thomas, C.2    Sheth, A.3    Henson, C.4    York, W.S.5
  • 83
    • 39149124415 scopus 로고    scopus 로고
    • Modularity defined
    • Sauro HM. 2008. Modularity defined. Mol Syst Biol, 4, 166.
    • (2008) Mol Syst Biol , vol.4 , pp. 166
    • Sauro, H.M.1
  • 85
    • 0030570080 scopus 로고    scopus 로고
    • A modeling framework for the study of protein glycosylation
    • DOI 10.1002/(SICI)1097-0290(19960405)50:1<73::AID-BIT9>3.0.CO;2-Z
    • Shelikoff M, Sinskey AJ, Stephanopoulos G. 1996. A modeling framework for the study of protein glycosylation. Biotechnology and Bioengineering, 50, 73-90. (Pubitemid 26086784)
    • (1996) Biotechnology and Bioengineering , vol.50 , Issue.1 , pp. 73-90
    • Shelikoff, M.1    Sinskey, A.J.2    Stephanopoulos, G.3
  • 86
    • 77954705605 scopus 로고    scopus 로고
    • Ensembles of signal transduction models using Pareto Optimal Ensemble Techniques OETs)
    • Song SO, Chakrabarti A, Varner JD. 2010. Ensembles of signal transduction models using Pareto Optimal Ensemble Techniques OETs). Biotechnol J, 5, 768-780.
    • (2010) Biotechnol J , vol.5 , pp. 768-780
    • Song, S.O.1    Chakrabarti, A.2    Varner, J.D.3
  • 87
    • 4544346660 scopus 로고    scopus 로고
    • Robustness of cellular functions
    • DOI 10.1016/j.cell.2004.09.008, PII S0092867404008402
    • Stelling J, Sauer U, Szallasi Z, Doyle FJ, 3rd, Doyle J. 2004. Robustness of cellular functions. Cell, 118, 675-685. (Pubitemid 39221728)
    • (2004) Cell , vol.118 , Issue.6 , pp. 675-685
    • Stelling, J.1    Sauer, U.2    Szallasi, Z.3    Doyle III, F.J.4    Doyle, J.5
  • 90
    • 0037376655 scopus 로고    scopus 로고
    • Sniffers, buzzers, toggles and blinkers: Dynamics of regulatory and signaling pathways in the cell
    • DOI 10.1016/S0955-0674(03)00017-6
    • Tyson JJ, Chen KC, Novak B. 2003. Sniffers, buzzers, toggles and blinkers: dynamics of regulatory and signaling pathways in the cell. Curr Opin Cell Biol, 15, 221-231. (Pubitemid 36332198)
    • (2003) Current Opinion in Cell Biology , vol.15 , Issue.2 , pp. 221-231
    • Tyson, J.J.1    Chen, K.C.2    Novak, B.3
  • 91
    • 0343581263 scopus 로고    scopus 로고
    • A mathematical model of N-linked glycoform biosynthesis
    • DOI 10.1002/(SICI)1097-0290(19970920)55:6<890::AID-BIT7>3.0.CO;2-B
    • Umana P, Bailey JE. 1997. A mathematical model of N-linked glycoform biosynthesis. Biotechnol Bioeng, 55, 890-908. (Pubitemid 27360509)
    • (1997) Biotechnology and Bioengineering , vol.55 , Issue.6 , pp. 890-908
    • Umana, P.1    Bailey, J.E.2
  • 93
    • 43049167278 scopus 로고    scopus 로고
    • Cross-scale sensitivity analysis of a non-small cell lung cancer model: Linking molecular signaling properties to cellular behavior
    • Wang ZH, Birch CM, Deisboeck TS. 2008. Cross-scale sensitivity analysis of a non-small cell lung cancer model: Linking molecular signaling properties to cellular behavior. Biosystems, 92, 249-258.
    • (2008) Biosystems , vol.92 , pp. 249-258
    • Zh, W.1    Birch, C.M.2    Deisboeck, T.S.3
  • 94
    • 34547100043 scopus 로고    scopus 로고
    • Essay: Defining systems biology: An engineering perspective
    • DOI 10.1049/iet-syb:20079017
    • Wolkenhauer O. 2007. Defining systems biology: an engineering perspective. IET Syst Biol, 1, 204-206. (Pubitemid 47097370)
    • (2007) IET Systems Biology , vol.1 , Issue.4 , pp. 204-206
    • Wolkenhauer, O.1
  • 95
    • 28544438397 scopus 로고    scopus 로고
    • Versatile fluorescent derivatization of glycans for glycomic analysis
    • DOI 10.1038/nmeth808, PII N808
    • Xia B, Kawar ZS, Ju T, Alvarez RA, Sachdev GP, Cummings RD. 2005. Versatile fluorescent derivatization of glycans for glycomic analysis. Nat Methods, 2, 845-850. (Pubitemid 41741535)
    • (2005) Nature Methods , vol.2 , Issue.11 , pp. 845-850
    • Xia, B.1    Kawar, Z.S.2    Ju, T.3    Alvarez, R.A.4    Sachdev, G.P.5    Cummings, R.D.6
  • 96
    • 0345359924 scopus 로고    scopus 로고
    • A positive-feedback-based bistable 'memory module' that governs a cell fate decision
    • DOI 10.1038/nature02089
    • Xiong W, Ferrell JE, Jr. 2003. A positive-feedback-based bistable 'memory module' that governs a cell fate decision. Nature, 426, 460-465. (Pubitemid 37490134)
    • (2003) Nature , vol.426 , Issue.6965 , pp. 460-465
    • Xiong, W.1    Ferrell Jr., J.E.2
  • 97
    • 65249085846 scopus 로고    scopus 로고
    • On-line separations combined with MS for analysis of glycosaminoglycans
    • Zaia J. 2009. On-line separations combined with MS for analysis of glycosaminoglycans. Mass Spectrom Rev, 28, 254-272.
    • (2009) Mass Spectrom Rev , vol.28 , pp. 254-272
    • Zaia, J.1
  • 98
    • 33750415038 scopus 로고    scopus 로고
    • SBML-PET: A Systems Biology Markup Language-based parameter estimation tool
    • DOI 10.1093/bioinformatics/btl443
    • Zi Z, Klipp E. 2006. SBML-PET: a Systems Biology Markup Language-based parameter estimation tool. Bioinformatics, 22, 2704-2705. (Pubitemid 44642616)
    • (2006) Bioinformatics , vol.22 , Issue.21 , pp. 2704-2705
    • Zi, Z.1    Klipp, E.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.