Dynamic properties of network motifs contribute to biological network organization

被引:265
作者
Prill, RJ
Iglesias, PA
Levchenko, A [1 ]
机构
[1] Johns Hopkins Univ, Dept Biomed Engn, Baltimore, MD 21218 USA
[2] Johns Hopkins Univ, Dept Elect & Comp Engn, Baltimore, MD 21218 USA
来源
PLOS BIOLOGY | 2005年 / 3卷 / 11期
关键词
D O I
10.1371/journal.pbio.0030343
中图分类号
Q5 [生物化学]; Q7 [分子生物学];
学科分类号
071010 ; 081704 ;
摘要
Biological networks, such as those describing gene regulation, signal transduction, and neural synapses, are representations of large-scale dynamic systems. Discovery of organizing principles of biological networks can be enhanced by embracing the notion that there is a deep interplay between network structure and system dynamics. Recently, many structural characteristics of these non-random networks have been identified, but dynamical implications of the features have not been explored comprehensively. We demonstrate by exhaustive computational analysis that a dynamical property - stability or robustness to small perturbations - is highly correlated with the relative abundance of small subnetworks ( network motifs) in several previously determined biological networks. We propose that robust dynamical stability is an influential property that can determine the non-random structure of biological networks.
引用
收藏
页码:1881 / 1892
页数:12
相关论文
共 33 条
[1]   Robustness in bacterial chemotaxis [J].
Alon, U ;
Surette, MG ;
Barkai, N ;
Leibler, S .
NATURE, 1999, 397 (6715) :168-171
[2]   Network biology:: Understanding the cell's functional organization [J].
Barabási, AL ;
Oltvai, ZN .
NATURE REVIEWS GENETICS, 2004, 5 (02) :101-U15
[3]   Robustness in simple biochemical networks [J].
Barkai, N ;
Leibler, S .
NATURE, 1997, 387 (6636) :913-917
[4]   Surviving heat shock: Control strategies for robustness and performance [J].
El-Samad, H ;
Kurata, H ;
Doyle, JC ;
Gross, CA ;
Khammash, M .
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2005, 102 (08) :2736-2741
[5]   Stochastic gene expression in a single cell [J].
Elowitz, MB ;
Levine, AJ ;
Siggia, ED ;
Swain, PS .
SCIENCE, 2002, 297 (5584) :1183-1186
[6]   A synthetic oscillatory network of transcriptional regulators [J].
Elowitz, MB ;
Leibler, S .
NATURE, 2000, 403 (6767) :335-338
[7]   Design of genetic networks with specified functions by evolution in silico [J].
François, P ;
Hakim, V .
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2004, 101 (02) :580-585
[8]   Genomic expression programs in the response of yeast cells to environmental changes [J].
Gasch, AP ;
Spellman, PT ;
Kao, CM ;
Carmel-Harel, O ;
Eisen, MB ;
Storz, G ;
Botstein, D ;
Brown, PO .
MOLECULAR BIOLOGY OF THE CELL, 2000, 11 (12) :4241-4257
[9]   Combinatorial synthesis of genetic networks [J].
Guet, CC ;
Elowitz, MB ;
Hsing, WH ;
Leibler, S .
SCIENCE, 2002, 296 (5572) :1466-1470
[10]   Transcriptional regulatory code of a eukaryotic genome [J].
Harbison, CT ;
Gordon, DB ;
Lee, TI ;
Rinaldi, NJ ;
Macisaac, KD ;
Danford, TW ;
Hannett, NM ;
Tagne, JB ;
Reynolds, DB ;
Yoo, J ;
Jennings, EG ;
Zeitlinger, J ;
Pokholok, DK ;
Kellis, M ;
Rolfe, PA ;
Takusagawa, KT ;
Lander, ES ;
Gifford, DK ;
Fraenkel, E ;
Young, RA .
NATURE, 2004, 431 (7004) :99-104