Topological implications of negative curvature for biological and social networks

Physical Review E - Statistical, Nonlinear, and Soft Matter Physics

Volumn 89, Issue 3, 2014, Pages

  Albert, Réka ^a   Dasgupta, Bhaskar ^b   Mobasheri, Nasim ^b  

^a PENNSYLVANIA STATE UNIVERSITY   (United States)

^b University of Illinois at Chicago   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

SOCIAL NETWORKING (ONLINE); TOPOLOGY;

BIOLOGICAL NETWORKS; HYPERBOLIC NETWORKS; LARGE-SCALE NETWORK; NEGATIVE CURVATURE; NETWORK MEASURES; RESEARCH COMMUNITIES; SHORTEST PATH; TOPOLOGICAL PROPERTIES;

COMPLEX NETWORKS;

PROTEOME;

ALGORITHM; ANIMAL; BIOLOGICAL MODEL; COMPUTER SIMULATION; HUMAN; METABOLISM; PHYSIOLOGY; SIGNAL TRANSDUCTION; SOCIAL NETWORK; STATISTICAL MODEL;

ALGORITHMS; ANIMALS; COMPUTER SIMULATION; HUMANS; MODELS, BIOLOGICAL; MODELS, STATISTICAL; PROTEOME; SIGNAL TRANSDUCTION; SOCIAL NETWORKING;

EID: 84898951240     PISSN: 15393755     EISSN: 15502376     Source Type: Journal    
DOI: 10.1103/PhysRevE.89.032811     Document Type: Article

References (55)

1. M. E. J. Newman, Networks: An Introduction (Oxford University Press, Oxford, 2010).
2. R. Albert and A.-L. Barabási, Rev. Mod. Phys. 74, 47 (2002). RMPHAT 0034-6861 10.1103/RevModPhys.74.47
3. V. Colizza, A. Flammini, M. A. Serrano, and A. Vespignani, Nat. Phys. 2, 110 (2006). 1745-2473 10.1038/nphys209 (Pubitemid 43731381)
4. V. Latora and M. Marchior, New J. Phys. 9, 188 (2007). NJOPFM 1367-2630 10.1088/1367-2630/9/6/188 (Pubitemid 47146371)
5. R. Albert, B. DasGupta, A. Gitter, G. Gürsoy, R. Hegde, P. Pal, G. S. Sivanathan, and E. Sontag, Phys. Rev. E 84, 036117 (2011). PLEEE8 1539-3755 10.1103/PhysRevE.84.036117
6. D. S. Bassett, N. F. Wymbs, M. A. Porter, P. J. Mucha, J. M. Carlson, and S. T. Grafton, Proc. Natl. Acad. Sci. USA 108, 7641 (2011). PNASA6 0027-8424 10.1073/pnas.1018985108
7. M. Gromov, Essays in Group Theory 8, 75 (1987). 10.1007/978-1-4613-9586- 7-3
8. E. A. Jonckheere and P. Lohsoonthorn, in Proceedings of the American Control Conference 2 (IEEE Press, Washington, DC, 2004), pp. 976-981.
9. E. Jonckheere, P. Lohsoonthorn, and F. Bonahon, J. Graph Theor. 57, 157 (2007). 0364-9024 10.1002/jgt.20275
10. F. Ariaei, M. Lou, E. Jonckheere, B. Krishnamachari, and M. Zuniga, EURASIP J. Wireless Commun. Netw. 2008, 213185 (2008). 10.1155/2008/213185
11. O. Narayan and I. Saniee, Phys. Rev. E 84, 066108 (2011). PLEEE8 1539-3755 10.1103/PhysRevE.84.066108
12. F. Papadopoulos, D. Krioukov, M. Boguna, and A. Vahdat, in Proceedings of the IEEE Conference on Computer Communications (IEEE Press, Washington, DC, 2010), pp. 1-9.
13. E. Jonckheerea, M. Loua, F. Bonahona, and Y. Baryshnikova, Internet Math. 7, 1 (2011). 1542-7951 10.1080/15427951.2010.554320
14. M. Bogun, F. Papadopoulos, and D. Krioukov, Nat. Commun. 1, 62 (2010).
15. F. de Montgolfier, M. Soto, and L. Viennot, in Proceedings of the 10th IEEE International Symposium on Networking Computing and Applications (IEEE Press, Washington, DC, 2011), pp. 25-32.
16. N. Robertson and P. D. Seymour, J. Comb. Theory Ser. B 35, 39 (1983). JCBTB8 0095-8956 10.1016/0095-8956(83)90079-5
17. H. L. Bodlaender, in Lecture Notes in Computer Science 317, edited by T. Lepistö and A. Salomaa (Springer, Berlin/Heidelberg, 1988), pp. 105-118.
18. V. Chepoi and B. Estellon, in Lecture Notes in Computer Science 4627, edited by M. Charikar, K. Jansen, O. Reingold, and J. D. P. Rolim (Springer, Berlin/Heidelberg, 2007), pp. 59-73.
19. V. Chepoi, F. F. Dragan, B. Estellon, M. Habib, and Y. Vaxès, in Proceedings of the 24th Annual Symposium on Computational Geometry (ACM Press, New York, 2008), pp. 59-68.
20. V. Chepoi, F. F. Dragan, B. Estellon, M. Habib, Y. Vaxès, and Y. Xiang, Algorithmica 62, 713 (2012). ALGOEJ 0178-4617 10.1007/s00453-010-9478-x
21. C. Gavoille and O. Ly, in Lecture Notes in Computer Science 3827, edited by X. Deng and D.-Z. Du (Springer, Berlin/Heidelberg, 2005), pp. 1071-1079.
22. I. Abraham, M. Balakrishnan, F. Kuhn, D. Malkhi, V. Ramasubramanian, and K. Talwar, in Proceedings of the 26th annual ACM Symposium on Principles of Distributed Computing (ACM Press, New York, 2007), pp. 43-52.
23. R. Krauthgamer and J. R. Lee, in Proceedings of the 47th Annual IEEE Symposium on Foundations of Computer Science (IEEE Press, Washington, DC, 2006), pp. 119-132.
24. J. Roe, Index Theory, Coarse Geometry, and Topology of Manifolds. Conference Board of the Mathematical Sciences Regional Conference Series 90 (American Mathematical Society, Providence, 1996).
25. See Supplemental Material at http://link.aps.org/supplemental/10.1103/ PhysRevE.89.032811 for addtional details of the networks studied.
26. S. S. Shen-Orr, R. Milo, S. Mangan, and U. Alon, Nat. Genet. 31, 64 (2002). NGENEC 1061-4036 10.1038/ng881
27. A. Ma'ayan, S. L. Jenkins, S. Neves, A. Hasseldine, E. Grace, B. Dubin-Thaler, N. J. Eungdamrong, G. Weng, P. T. Ram, J. Jeremy Rice, A. Kershenbaum, G. A. Stolovitzky, R. D. Blitzer, and R. Iyengar, Science 309, 1078 (2005). SCIEAS 0036-8075 10.1126/science.1108876 (Pubitemid 41134466)
28. [25, updated version] see www.weizmann.ac.il/mcb/UriAlon/Papers/ networkMotifs/coli1-1Inter-st.txt.
29. R. Zhang, M. V. Shah, J. Yang, S. B. Nyland, X. Liu, J. K. Yun, R. Albert, and T. P. Loughran, Proc. Natl. Acad. Sci. USA 105, 16308 (2008). PNASA6 0027-8424 10.1073/pnas.0806447105
30. R. Milo, S. Shen-Orr, S. Itzkovitz, N. Kashtan, and D. U. Alon, Science 298, 824 (2002). SCIEAS 0036-8075 10.1126/science.298.5594.824 (Pubitemid 35231534)
31. H. Jeong, B. Tombor, R. Albert, Z. N. Oltvai, and A.-L. Barabasi, Nature (London) 407, 651 (2000). NATUAS 0028-0836 10.1038/35036627
32. G. von Dassow, E. Meir, E. M. Munro, and G. M. Odell, Nature (London) 406, 188 (2000). NATUAS 0028-0836 10.1038/35018085 (Pubitemid 30469001)
33. S. Li, S. M. Assmann, and R. Albert, PLoS Biol. 4, e312 (2006). 1544-9173 10.1371/journal.pbio.0040312 (Pubitemid 44610093)
34. J. Thakar, M. Pilione, G. Kirimanjeswara, E. T. Harvill, and R. Albert, PLoS Comput. Biol. 3, e109 (2007). 1553-734X 10.1371/journal.pcbi.0030109 (Pubitemid 47015838)
35. J. Saez-Rodriguez, L. Simeoni, J. A. Lindquist, R. Hemenway, U. Bommhardt, B. Arndt, U.-U. Haus, R. Weismantel, E. D. Gilles, S. Klamt, and B. Schraven, PLoS Comput. Biol. 3, e163 (2007). 1553-734X 10.1371/journal.pcbi. 0030163 (Pubitemid 47358065)
36. A. Gitter, J. Klein-Seetharaman, A. Gupta, and Z. Bar-Joseph, Nucl. Acids Res. 39, e22 (2011). NARHAD 0305-1048 10.1093/nar/gkq1207
37. D. Lusseau, K. Schneider, O. J. Boisseau, P. Haase, E. Slooten, and S. M. Dawson, Behav. Ecol. Sociobiol. 54, 396 (2003). 0340-5443 10.1007/s00265-003- 0651-y (Pubitemid 37144024)
38. M. Girvan and M. E. J. Newman, Proc. Natl. Acad. Sci. USA 99, 7821 (2002). PNASA6 0027-8424 10.1073/pnas.122653799 (Pubitemid 34650963)
39. W. W. Zachary, J. Anthropol. Res. 33, 452 (1977).
40. V. Krebs, www.orgnet.com.
41. J. H. Michael and J. G. Massey, For. Prod. J. 47, 25 (1997).
42. P. Gleiser and L. Danon, Adv. Complex Syst. 6, 565 (2003). 0219-5259 10.1142/S0219525903001067
43. C. P. Loomis, J. O. Morales, R. A. Clifford, and O. E. Leonard, Turrialba: Social Systems and the Introduction of Change (The Free Press, Glencoe, 1953).
44. Dagstuhl seminar, Link Analysis and Visualization, Dagstuhl 1-6, 2001 http://vlado.fmf.uni-lj.si/pub/networks/data/sport/football.htm.
45. D. E. Knuth, The Stanford GraphBase: A Platform for Combinatorial Computing (Addison-Wesley, Reading, 1993).
46. E. Jonckheere, P. Lohsoonthorn, and F. Ariaei, Internet Math. 7, 137 (2011). 1542-7951 10.1080/15427951.2011.601233
47. R. Kannan, P. Tetali, and S. Vempala, Random Struct. Alg. 14, 293 (1999). 10.1002/(SICI)1098-2418(199907)14:4<293::AID-RSA1>3.0.CO;2-G
48. B. Alberts, Molecular Biology of the Cell (Garland, New York, 1994).
49. T. I. Lee, N. J. Rinaldi, F. Robert, D. T. Odom, Z. Bar-Joseph, G. K. Gerber, N. M. Hannett, C. T. Harbison, C. M. Thompson, I. Simon, J. Zeitlinger, E. G. Jennings, H. L. Murray, D. B. Gordon, B. Ren, J. J. Wyrick, J.-B. Tagne, T. L. Volkert, E. Fraenkel, D. K. Gifford, and R. A. Young, Science 298, 799 (2002). SCIEAS 0036-8075 10.1126/science.1075090 (Pubitemid 35231527)
50. M. R. Bridson and A. Haefliger, Metric Spaces of Non-Positive Curvature (Springer, New York, 1999).
51. R. Albert, J. Cell Sci. 118, 4947 (2005). JNCSAI 0021-9533 10.1242/jcs.02714 (Pubitemid 41672427)
52. R. S. Burt, Structural Holes: The Social Structure of Competition (Harvard University Press, Cambridge, 1995).
53. S. P. Borgatti, Connections 20, 35 (1997).
54. M. R. Garey and D. S. Johnson, Computers and Intractability-A Guide to the Theory of NP-Completeness (W. H. Freeman, New York, 1979).
55. P. Gupta, R. Janardan, M. Smid, and B. DasGupta, Int. J. Comput. Geom. Appl. 7, 437 (1997). IJCAEV 0218-1959 10.1142/S0218195997000260