dorsal/arxiv
View SchemaModularity "for free" in genome architecture?
| Authors | Ricard V. Sole, Pau Fernandez |
|---|---|
| Categories | |
| ArXiv ID | q-bio/0312032 |
| URL | https://arxiv.org/abs/q-bio/0312032 |
Abstract
Background: Recent models of genome-proteome evolution have shown that some of the key traits displayed by the global structure of cellular networks might be a natural result of a duplication-diversification (DD) process. One of the consequences of such evolution is the emergence of a small world architecture together with a scale-free distribution of interactions. Here we show that the domain of parameter space were such structure emerges is related to a phase transition phenomenon. At this transition point, modular architecture spontaneously emerges as a byproduct of the DD process. Results: Although the DD models lack any functionality and are thus free from meeting functional constraints, they show the observed features displayed by the real proteome maps when tuned close to a sharp transition point separating a highly connected graph from a disconnected system. Close to such boundary, the maps are shown to display scale-free hierarchical organization, behave as small worlds and exhibit modularity. Conclusions: It is conjectured that natural selection tuned the average connectivity in such a way that the network reaches a sparse graph of connections. One consequence of such scenario is that the scaling laws and the essential ingredients for building a modular net emerge for free close to such transition.
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"abstract": "Background: Recent models of genome-proteome evolution have shown that some\nof the key traits displayed by the global structure of cellular networks might\nbe a natural result of a duplication-diversification (DD) process. One of the\nconsequences of such evolution is the emergence of a small world architecture\ntogether with a scale-free distribution of interactions. Here we show that the\ndomain of parameter space were such structure emerges is related to a phase\ntransition phenomenon. At this transition point, modular architecture\nspontaneously emerges as a byproduct of the DD process.\n Results: Although the DD models lack any functionality and are thus free from\nmeeting functional constraints, they show the observed features displayed by\nthe real proteome maps when tuned close to a sharp transition point separating\na highly connected graph from a disconnected system. Close to such boundary,\nthe maps are shown to display scale-free hierarchical organization, behave as\nsmall worlds and exhibit modularity.\n Conclusions: It is conjectured that natural selection tuned the average\nconnectivity in such a way that the network reaches a sparse graph of\nconnections. One consequence of such scenario is that the scaling laws and the\nessential ingredients for building a modular net emerge for free close to such\ntransition.",
"arxiv_id": "q-bio/0312032",
"authors": [
"Ricard V. Sole",
"Pau Fernandez"
],
"categories": [
"q-bio.GN",
"q-bio.MN"
],
"title": "Modularity \"for free\" in genome architecture?",
"url": "https://arxiv.org/abs/q-bio/0312032"
},
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