network;
protein interaction;
topology;
mutational resistance;
gene dispensability;
yeast;
D O I:
10.1098/rspb.2005.3128
中图分类号:
Q [生物科学];
学科分类号:
07 ;
0710 ;
09 ;
摘要:
The mechanistic bases for gene essentiality and for cell mutational resistance have long been disputed. The recent availability of large protein interaction databases has fuelled the analysis of protein interaction networks and several authors have proposed that gene dispensability could be strongly related to some topological parameters of these networks. However, many results were based on protein interaction data whose biases were not taken into account. In this article, we show that the essentiality of a gene in yeast is poorly related to the number of interactants (or degree) of the corresponding protein and that the physiological consequences of gene deletions are unrelated to several other properties of proteins in the interaction networks, such as the average degrees of their nearest neighbours, their clustering coefficients or their relative distances. We also found that yeast protein interaction networks lack degree correlation, i.e. a propensity for their vertices to associate according to their degrees. Gene essentiality and more generally cell resistance against mutations thus seem largely unrelated to many parameters of protein network topology.
机构:
Univ Calif Los Angeles, Howard Hughes Med Inst, Inst Mol Biol, UCLA DOE Lab Struct Biol & Mol Med, Los Angeles, CA 90095 USAUniv Calif Los Angeles, Howard Hughes Med Inst, Inst Mol Biol, UCLA DOE Lab Struct Biol & Mol Med, Los Angeles, CA 90095 USA
Deane, CM
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Salwinski, L
论文数: 引用数:
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Xenarios, I
Eisenberg, D
论文数: 0引用数: 0
h-index: 0
机构:
Univ Calif Los Angeles, Howard Hughes Med Inst, Inst Mol Biol, UCLA DOE Lab Struct Biol & Mol Med, Los Angeles, CA 90095 USAUniv Calif Los Angeles, Howard Hughes Med Inst, Inst Mol Biol, UCLA DOE Lab Struct Biol & Mol Med, Los Angeles, CA 90095 USA
机构:Univ Calif San Francisco, Howard Hughes Med Inst, San Francisco, CA 94143 USA
Ghaemmaghami, S
Huh, W
论文数: 0引用数: 0
h-index: 0
机构:Univ Calif San Francisco, Howard Hughes Med Inst, San Francisco, CA 94143 USA
Huh, W
Bower, K
论文数: 0引用数: 0
h-index: 0
机构:Univ Calif San Francisco, Howard Hughes Med Inst, San Francisco, CA 94143 USA
Bower, K
Howson, RW
论文数: 0引用数: 0
h-index: 0
机构:Univ Calif San Francisco, Howard Hughes Med Inst, San Francisco, CA 94143 USA
Howson, RW
Belle, A
论文数: 0引用数: 0
h-index: 0
机构:Univ Calif San Francisco, Howard Hughes Med Inst, San Francisco, CA 94143 USA
Belle, A
Dephoure, N
论文数: 0引用数: 0
h-index: 0
机构:Univ Calif San Francisco, Howard Hughes Med Inst, San Francisco, CA 94143 USA
Dephoure, N
O'Shea, EK
论文数: 0引用数: 0
h-index: 0
机构:Univ Calif San Francisco, Howard Hughes Med Inst, San Francisco, CA 94143 USA
O'Shea, EK
Weissman, JS
论文数: 0引用数: 0
h-index: 0
机构:
Univ Calif San Francisco, Howard Hughes Med Inst, San Francisco, CA 94143 USAUniv Calif San Francisco, Howard Hughes Med Inst, San Francisco, CA 94143 USA
机构:
Univ Calif Los Angeles, Howard Hughes Med Inst, Inst Mol Biol, UCLA DOE Lab Struct Biol & Mol Med, Los Angeles, CA 90095 USAUniv Calif Los Angeles, Howard Hughes Med Inst, Inst Mol Biol, UCLA DOE Lab Struct Biol & Mol Med, Los Angeles, CA 90095 USA
Deane, CM
论文数: 引用数:
h-index:
机构:
Salwinski, L
论文数: 引用数:
h-index:
机构:
Xenarios, I
Eisenberg, D
论文数: 0引用数: 0
h-index: 0
机构:
Univ Calif Los Angeles, Howard Hughes Med Inst, Inst Mol Biol, UCLA DOE Lab Struct Biol & Mol Med, Los Angeles, CA 90095 USAUniv Calif Los Angeles, Howard Hughes Med Inst, Inst Mol Biol, UCLA DOE Lab Struct Biol & Mol Med, Los Angeles, CA 90095 USA
机构:Univ Calif San Francisco, Howard Hughes Med Inst, San Francisco, CA 94143 USA
Ghaemmaghami, S
Huh, W
论文数: 0引用数: 0
h-index: 0
机构:Univ Calif San Francisco, Howard Hughes Med Inst, San Francisco, CA 94143 USA
Huh, W
Bower, K
论文数: 0引用数: 0
h-index: 0
机构:Univ Calif San Francisco, Howard Hughes Med Inst, San Francisco, CA 94143 USA
Bower, K
Howson, RW
论文数: 0引用数: 0
h-index: 0
机构:Univ Calif San Francisco, Howard Hughes Med Inst, San Francisco, CA 94143 USA
Howson, RW
Belle, A
论文数: 0引用数: 0
h-index: 0
机构:Univ Calif San Francisco, Howard Hughes Med Inst, San Francisco, CA 94143 USA
Belle, A
Dephoure, N
论文数: 0引用数: 0
h-index: 0
机构:Univ Calif San Francisco, Howard Hughes Med Inst, San Francisco, CA 94143 USA
Dephoure, N
O'Shea, EK
论文数: 0引用数: 0
h-index: 0
机构:Univ Calif San Francisco, Howard Hughes Med Inst, San Francisco, CA 94143 USA
O'Shea, EK
Weissman, JS
论文数: 0引用数: 0
h-index: 0
机构:
Univ Calif San Francisco, Howard Hughes Med Inst, San Francisco, CA 94143 USAUniv Calif San Francisco, Howard Hughes Med Inst, San Francisco, CA 94143 USA