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Volumn 9, Issue 2, 2014, Pages

Node interference and robustness: Performing virtual knock-out experiments on biological networks: the case of leukocyte integrin activation network

Author keywords

[No Author keywords available]

Indexed keywords

HEMATOPOIETIC CELL KINASE; INTEGRIN; JANUS KINASE 2; PROTEIN KINASE; PROTEIN TYROSINE KINASE; PROTEIN KINASE INHIBITOR;

EID: 84896745959     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0088938     Document Type: Article
Times cited : (17)

References (47)
  • 2
    • 0033555859 scopus 로고    scopus 로고
    • Emergent properties of networks of biological signaling pathways
    • Bhalla US, Iyengar R (1999) Emergent properties of networks of biological signaling pathways. Science 283.
    • (1999) Science , pp. 283
    • Bhalla, U.S.1    Iyengar, R.2
  • 3
    • 0035826155 scopus 로고    scopus 로고
    • Exploring complex networks
    • Strogatz SH (2001) Exploring complex networks. Nature 410: 268-276.
    • (2001) Nature , vol.410 , pp. 268-276
    • Strogatz, S.H.1
  • 4
    • 0038483826 scopus 로고    scopus 로고
    • Emergence of scaling in random networks
    • Barabási AL, Albert R (1999) Emergence of scaling in random networks. Science 286: 509-512.
    • (1999) Science , vol.286 , pp. 509-512
    • Barabási, A.L.1    Albert, R.2
  • 7
    • 0037174670 scopus 로고    scopus 로고
    • Network motifs: Simple building blocks of complex networks
    • DOI 10.1126/science.298.5594.824
    • Milo R, Shen-Orr S, Itzkovitz S, Kashtan N, Chklovskii D, et al. (2002) Network motifs: Simple building blocks of complex networks. Science 298: 824-827. (Pubitemid 35231534)
    • (2002) Science , vol.298 , Issue.5594 , pp. 824-827
    • Milo, R.1    Shen-Orr, S.2    Itzkovitz, S.3    Kashtan, N.4    Chklovskii, D.5    Alon, U.6
  • 8
    • 0032482432 scopus 로고    scopus 로고
    • Collective dynamics of 'small-world' networks
    • DOI 10.1038/30918
    • Watts DJ, Strogatz SH (1998) Collective dynamics of 'small-world' networks. Nature 393: 440-442. (Pubitemid 28292183)
    • (1998) Nature , vol.393 , Issue.6684 , pp. 440-442
    • Watts, D.J.1    Strogatz, S.H.2
  • 10
    • 33750177351 scopus 로고
    • Centrality in social networks: Conceptual clarification
    • Freeman LC (1978) Centrality in social networks: conceptual clarification. Social networks 1: 215-239.
    • (1978) Social Networks , vol.1 , pp. 215-239
    • Freeman, L.C.1
  • 11
    • 70350664654 scopus 로고    scopus 로고
    • Analyzing biological network parameters with CentiScaPe
    • Scardoni G, Petterlini M, Laudanna C (2009) Analyzing biological network parameters with CentiScaPe. Bioinformatics 25: 2857-2859.
    • (2009) Bioinformatics , vol.25 , pp. 2857-2859
    • Scardoni, G.1    Petterlini, M.2    Laudanna, C.3
  • 12
    • 0742305866 scopus 로고    scopus 로고
    • Network biology: Understanding the cell's functional organization
    • Barabási AL, Oltvai ZN (2004) Network biology: understanding the cell's functional organization. Nature Reviews Genetics 5: 101-113.
    • (2004) Nature Reviews Genetics , vol.5 , pp. 101-113
    • Barabási, A.L.1    Oltvai, Z.N.2
  • 13
    • 0035799707 scopus 로고    scopus 로고
    • Lethality and centrality in protein networks
    • DOI 10.1038/35075138
    • Jeong H, Mason SP, Barabási AL, Oltvai ZN (2001) Lethality and centrality in protein networks. Nature 411: 41-42. (Pubitemid 32428180)
    • (2001) Nature , vol.411 , Issue.6833 , pp. 41-42
    • Jeong, H.1    Mason, S.P.2    Barabasi, A.-L.3    Oltvai, Z.N.4
  • 14
    • 0034721164 scopus 로고    scopus 로고
    • Error and attack tolerance of complex networks
    • DOI 10.1038/35019019
    • Albert R, Jeong H, Barabási AL (2000) Error and attack tolerance of complex networks. Nature 406: 378-382. (Pubitemid 30625551)
    • (2000) Nature , vol.406 , Issue.6794 , pp. 378-382
    • Albert, R.1    Jeong, H.2    Barabasi, A.-L.3
  • 17
    • 79955879494 scopus 로고    scopus 로고
    • Controllability of complex networks
    • Liu YY, Slotine JJ, Barabási AL (2011) Controllability of complex networks. Nature 473: 167-173.
    • (2011) Nature , vol.473 , pp. 167-173
    • Liu, Y.Y.1    Slotine, J.J.2    Barabási, A.L.3
  • 19
    • 79960238966 scopus 로고    scopus 로고
    • Network neighbors of drug targets contribute to drug side-effect similarity
    • Brouwers L, Iskar M, Zeller G, van Noort V, Bork P (2011) Network neighbors of drug targets contribute to drug side-effect similarity. PLoS ONE 6: e22187.
    • (2011) PLoS ONE , vol.6
    • Brouwers, L.1    Iskar, M.2    Zeller, G.3    Van Noort, V.4    Bork, P.5
  • 20
    • 70350482286 scopus 로고    scopus 로고
    • Evolution of biomolecular networks lessons from metabolic and protein interactions
    • Yamada T, Bork P (2009) Evolution of biomolecular networks lessons from metabolic and protein interactions. Nature Reviews Molecular Cell Biology 10: 791-803.
    • (2009) Nature Reviews Molecular Cell Biology , vol.10 , pp. 791-803
    • Yamada, T.1    Bork, P.2
  • 21
    • 77955721752 scopus 로고    scopus 로고
    • Glioblastoma-specific protein interaction network identifies pp1a and csk21 as connecting molecules between cell cycleassociated genes
    • Ladha J, Donakonda S, Agrawal S, Thota B, Srividya MR, et al. (2010) Glioblastoma-specific protein interaction network identifies pp1a and csk21 as connecting molecules between cell cycleassociated genes. Cancer Res 70: 6437-47.
    • (2010) Cancer Res , vol.70 , pp. 6437-6447
    • Ladha, J.1    Donakonda, S.2    Agrawal, S.3    Thota, B.4    Srividya, M.R.5
  • 23
    • 0038718854 scopus 로고    scopus 로고
    • The Structure and Function of Complex Networks
    • Newman MEJ (2003) The Structure and Function of Complex Networks. SIAM Review 45: 167-256.
    • (2003) SIAM Review , vol.45 , pp. 167-256
    • Newman, M.E.J.1
  • 25
    • 77957657987 scopus 로고    scopus 로고
    • Application of computational approaches to study signalling networks of nuclear and Tyrosine kinase receptors
    • Choura M, Rebaï A (2010) Application of computational approaches to study signalling networks of nuclear and Tyrosine kinase receptors. Biology direct 5: 58+.
    • (2010) Biology Direct , vol.5 , pp. 58
    • Choura, M.1    Rebaï, A.2
  • 26
    • 77949508610 scopus 로고    scopus 로고
    • Expression-based network biology identifies alteration in key regulatory pathways of type 2 diabetes and associated risk/complications
    • Sengupta U, Ukil S, Dimitrova N, Agrawal S (2009) Expression-based network biology identifies alteration in key regulatory pathways of type 2 diabetes and associated risk/complications. PloS one 4: e8100+.
    • (2009) PloS One , vol.4
    • Sengupta, U.1    Ukil, S.2    Dimitrova, N.3    Agrawal, S.4
  • 27
    • 72949085382 scopus 로고    scopus 로고
    • Finding Key Members in Compound Libraries by Analyzing Networks of Molecules Assembled by Structural Similarity
    • 0: 091030094710018+
    • Lepp Z, Huang C, Okada T (2009) Finding Key Members in Compound Libraries by Analyzing Networks of Molecules Assembled by Structural Similarity. Journal of Chemical Information and Modeling 0: 091030094710018+.
    • (2009) Journal of Chemical Information and Modeling
    • Lepp, Z.1    Huang, C.2    Okada, T.3
  • 28
    • 80052434990 scopus 로고    scopus 로고
    • The developmental aging and origins of health and disease hypotheses explained by different protein networks
    • Feltes B, de Faria Poloni J, Bonatto D (2011) The developmental aging and origins of health and disease hypotheses explained by different protein networks. Biogerontology 12: 293-308.
    • (2011) Biogerontology , vol.12 , pp. 293-308
    • Feltes, B.1    De Faria Poloni, J.2    Bonatto, D.3
  • 29
    • 84875660817 scopus 로고    scopus 로고
    • Characterization in silico of flavonoids biosynthesis in theobroma cacao l
    • Arsenio Rodriguez DI (2011) Characterization in silico of flavonoids biosynthesis in theobroma cacao l. Network Biology 1: 34-45.
    • (2011) Network Biology , vol.1 , pp. 34-45
    • Arsenio Rodriguez, D.I.1
  • 30
    • 0037345719 scopus 로고    scopus 로고
    • Subnetwork hierarchies of biochemical pathways
    • DOI 10.1093/bioinformatics/btg033
    • Holme P, Huss M, Jeong H (2003) Subnetwork hierarchies of biochemical pathways. Bioinformatics 19: 532-538. (Pubitemid 36342252)
    • (2003) Bioinformatics , vol.19 , Issue.4 , pp. 532-538
    • Holme, P.1    Huss, M.2    Jeong, H.3
  • 31
    • 0038700482 scopus 로고    scopus 로고
    • Centers of complex networks
    • DOI 10.1016/S0022-5193(03)00071-7
    • Wuchty S, Stadler PF (2003) Centers of complex networks. J Theor Biol 223: 45-53. (Pubitemid 36627545)
    • (2003) Journal of Theoretical Biology , vol.223 , Issue.1 , pp. 45-53
    • Wuchty, S.1    Stadler, P.F.2
  • 33
    • 84865730611 scopus 로고
    • A set of measures of centrality based on betweenness
    • Freeman LC (1977) A set of measures of centrality based on betweenness. Sociometry 40: 35-41.
    • (1977) Sociometry , vol.40 , pp. 35-41
    • Freeman, L.C.1
  • 34
    • 0001492480 scopus 로고
    • Centrality in valued graphs: A measure for betweenness based on network flow
    • Freeman LC, Borgatti SP, White DR (1991) Centrality in valued graphs: A measure for betweenness based on network flow. Social networks 13: 141-154.
    • (1991) Social Networks , vol.13 , pp. 141-154
    • Freeman, L.C.1    Borgatti, S.P.2    White, D.R.3
  • 35
    • 33746674977 scopus 로고    scopus 로고
    • Exploration of biological network centralities with centibin
    • Junker B, Koschutzki D, Schreiber F (2006) Exploration of biological network centralities with centibin. BMC Bioinformatics 7: 219+.
    • (2006) BMC Bioinformatics , vol.7 , pp. 219
    • Junker, B.1    Koschutzki, D.2    Schreiber, F.3
  • 37
    • 34548230927 scopus 로고    scopus 로고
    • Getting to the site of inflammation: The leukocyte adhesion cascade updated
    • DOI 10.1038/nri2156, PII NRI2156
    • Ley K, Laudanna C, Cybulsky MI, Nourshargh S (2007) Getting to the site of inflammation: the leukocyte adhesion cascade updated. Nature Reviews Immunology 7: 678-689. (Pubitemid 47327397)
    • (2007) Nature Reviews Immunology , vol.7 , Issue.9 , pp. 678-689
    • Ley, K.1    Laudanna, C.2    Cybulsky, M.I.3    Nourshargh, S.4
  • 41
    • 58549086016 scopus 로고    scopus 로고
    • Regulation of conformer-specific activation of the integrin LFA-1 by a chemokine-triggered Rho signaling module
    • Bolomini-Vittori M, Montresor A, Giagulli C, Staunton D, Rossi B, et al. (2009) Regulation of conformer-specific activation of the integrin LFA-1 by a chemokine-triggered Rho signaling module. Nature immunology.
    • (2009) Nature Immunology
    • Bolomini-Vittori, M.1    Montresor, A.2    Giagulli, C.3    Staunton, D.4    Rossi, B.5
  • 42
    • 1642578985 scopus 로고    scopus 로고
    • RhoA and [zeta] PKC Control Distinct Modalities of LFA-1 Activation by Chemokines: Critical Role of LFA-1 Affinity Triggering in Lymphocyte In Vivo Homing
    • DOI 10.1016/S1074-7613(03)00350-9
    • Giagulli C, Scarpini E, Ottoboni L, Narumiya S, Butcher EC, et al. (2004) Rhoa and [zeta] pkc control distinct modalities of lfa-1 activation by chemokines: Critical role of lfa-1 affinity triggering in lymphocyte in vivo homing. Immunity 20: 25-35. (Pubitemid 38134291)
    • (2004) Immunity , vol.20 , Issue.1 , pp. 25-35
    • Giagulli, C.1    Scarpini, E.2    Ottoboni, L.3    Narumiya, S.4    Butcher, E.C.5    Constantin, G.6    Laudanna, C.7
  • 43
    • 0034507687 scopus 로고    scopus 로고
    • Chemokines trigger immediate beta2 integrin affinity and mobility changes - Differential regulation and roles in lymphocyte arrest under flow
    • Constantin G, Majeed M, Giagulli C, Piccio L, Kim J, et al. (2000) Chemokines trigger immediate beta2 integrin affinity and mobility changes - differential regulation and roles in lymphocyte arrest under flow. Immunity 13: 759-769(11).
    • (2000) Immunity , vol.13
    • Constantin, G.1    Majeed, M.2    Giagulli, C.3    Piccio, L.4    Kim, J.5
  • 44
    • 33745313872 scopus 로고    scopus 로고
    • The src family kinases hck and fgr are dispensable for inside-out, chemoattractant-induced signaling regulating 2 integrin affinity and valency in neutrophils, but are required for 2 integrin-mediated outside-in signaling involved in sustained adhesion
    • Giagulli C, Ottoboni L, Caveggion E, Rossi B, Lowell C, et al. (2006) The src family kinases hck and fgr are dispensable for inside-out, chemoattractant-induced signaling regulating 2 integrin affinity and valency in neutrophils, but are required for 2 integrin-mediated outside-in signaling involved in sustained adhesion. J Immunol 177: 604611.
    • (2006) J Immunol , vol.177 , pp. 604611
    • Giagulli, C.1    Ottoboni, L.2    Caveggion, E.3    Rossi, B.4    Lowell, C.5
  • 45
    • 2342597085 scopus 로고    scopus 로고
    • Regulation of lymphocyte adhesion and migration by the small GTPase Rap1 and its effector molecule, RAPL
    • DOI 10.1016/j.imlet.2004.02.008, PII S0165247804000409
    • Kinashi T, Katagiri K (2004) Regulation of lymphocyte adhesion and migration by the small gtpase rap1 and its effector molecule, rapl. Immunology Letters 93: 1-5. (Pubitemid 38591512)
    • (2004) Immunology Letters , vol.93 , Issue.1 , pp. 1-5
    • Kinashi, T.1    Katagiri, K.2
  • 46
    • 0035166327 scopus 로고    scopus 로고
    • Dual role of hras in regulation of lymphocyte function antigen-1 activity by stromal cell-derived factor-1alpha: Implications for leukocyte transmigration
    • Weber K, Ostermann G, Zernecke A, Schroder A, Klickstein L, et al. (2001) Dual role of hras in regulation of lymphocyte function antigen-1 activity by stromal cell-derived factor-1alpha: implications for leukocyte transmigration. Mol Biol Cell 12: 30743086.
    • (2001) Mol Biol Cell , vol.12 , pp. 30743086
    • Weber, K.1    Ostermann, G.2    Zernecke, A.3    Schroder, A.4    Klickstein, L.5
  • 47
    • 0031768521 scopus 로고    scopus 로고
    • Tyrphostin AG490, a tyrosine kinase inhibitor, blocks actively induced experimental autoimmune encephalomyelitis
    • DOI 10.1002/(SICI)1521-4141(199811)28:11<3523::AID
    • Constantin G, Brocke S, Izikson A, Laudanna C, Butcher E (1998) Tyrphostin ag490, a tyrosine kinase inhibitor, blocks actively induced experimental autoimmune encephalomyelitis. Eur J Immunol 28: 3523-3529. (Pubitemid 28510763)
    • (1998) European Journal of Immunology , vol.28 , Issue.11 , pp. 3523-3529
    • Constantin, G.1    Brocke, S.2    Izikson, A.3    Laudanna, C.4    Butcher, E.C.5


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