dorsal/arxiv
View SchemaSelf-organization of gene regulatory network motifs enriched with short transcript's half-life transcription factors
| Authors | Edwin Wang, Enrico Purisima |
|---|---|
| Categories | |
| ArXiv ID | q-bio/0504025 |
| URL | https://arxiv.org/abs/q-bio/0504025 |
| DOI | 10.1016/j.tig.2005.06.013 |
| Journal | Trends Genet, 21:492-495, 2005 |
Abstract
Network motifs, the recurring regulatory structural patterns in networks, are able to self-organize to produce networks. Three major motifs, feedforward loop, single input modules and bi-fan are found in gene regulatory networks. The large ratio of genes to transcription factors (TFs) in genomes leads to a sharing of TFs by motifs and is sufficient to result in network self-organization. We find a common design principle of these motifs: short transcript's half-life (THL) TFs are significantly enriched in motifs and hubs. This enrichment becomes one of the driving forces for the emergence of the network scale-free topology and allows the network to quickly adapt to environmental changes. Most feedforward loops and bi-fans contain at least one short THL TF, which can be seen as a criterion for self-assembling these motifs. We have classified the motifs according to their short THL TF content. We show that the percentage of the different motif subtypes varies in different cellular conditions.
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"abstract": "Network motifs, the recurring regulatory structural patterns in networks, are\nable to self-organize to produce networks. Three major motifs, feedforward\nloop, single input modules and bi-fan are found in gene regulatory networks.\nThe large ratio of genes to transcription factors (TFs) in genomes leads to a\nsharing of TFs by motifs and is sufficient to result in network\nself-organization. We find a common design principle of these motifs: short\ntranscript\u0027s half-life (THL) TFs are significantly enriched in motifs and hubs.\nThis enrichment becomes one of the driving forces for the emergence of the\nnetwork scale-free topology and allows the network to quickly adapt to\nenvironmental changes. Most feedforward loops and bi-fans contain at least one\nshort THL TF, which can be seen as a criterion for self-assembling these\nmotifs. We have classified the motifs according to their short THL TF content.\nWe show that the percentage of the different motif subtypes varies in different\ncellular conditions.",
"arxiv_id": "q-bio/0504025",
"authors": [
"Edwin Wang",
"Enrico Purisima"
],
"categories": [
"q-bio.MN"
],
"doi": "10.1016/j.tig.2005.06.013",
"journal_ref": "Trends Genet, 21:492-495, 2005",
"title": "Self-organization of gene regulatory network motifs enriched with short transcript\u0027s half-life transcription factors",
"url": "https://arxiv.org/abs/q-bio/0504025"
},
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