dorsal/arxiv
View SchemaTopological basis of signal integration in the transcriptional-regulatory network of the yeast, Saccharomyces cerevisiae
| Authors | Illes J. Farkas, Chuang Wu, Chakra Chennubhotla, Ivet Bahar, Zoltan N. Oltvai |
|---|---|
| Categories | |
| ArXiv ID | q-bio/0610055 |
| URL | https://arxiv.org/abs/q-bio/0610055 |
| DOI | 10.1186/1471-2105-7-478 |
| Journal | BMC Bioinformatics 2006, 7:478 |
Abstract
BACKGROUND. Signal recognition and information processing is a fundamental cellular function, which in part involves comprehensive transcriptional regulatory (TR) mechanisms carried out in response to complex environmental signals in the context of the cell's own internal state. However, the network topological basis of developing such integrated responses remains poorly understood. RESULTS. By studying the TR network of the yeast Saccharomyces cerevisiae we show that an intermediate layer of transcription factors naturally segregates into distinct subnetworks. In these topological units transcription factors are densely interlinked in a largely hierarchical manner and respond to external signals by utilizing a fraction of these subnets. CONCLUSIONS. As transcriptional regulation represents the "slow" component of overall information processing, the identified topology suggests a model in which successive waves of transcriptional regulation originating from distinct fractions of the TR network control robust integrated responses to complex stimuli.
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"abstract": "BACKGROUND. Signal recognition and information processing is a fundamental\ncellular function, which in part involves comprehensive transcriptional\nregulatory (TR) mechanisms carried out in response to complex environmental\nsignals in the context of the cell\u0027s own internal state. However, the network\ntopological basis of developing such integrated responses remains poorly\nunderstood.\n RESULTS. By studying the TR network of the yeast Saccharomyces cerevisiae we\nshow that an intermediate layer of transcription factors naturally segregates\ninto distinct subnetworks. In these topological units transcription factors are\ndensely interlinked in a largely hierarchical manner and respond to external\nsignals by utilizing a fraction of these subnets.\n CONCLUSIONS. As transcriptional regulation represents the \"slow\" component of\noverall information processing, the identified topology suggests a model in\nwhich successive waves of transcriptional regulation originating from distinct\nfractions of the TR network control robust integrated responses to complex\nstimuli.",
"arxiv_id": "q-bio/0610055",
"authors": [
"Illes J. Farkas",
"Chuang Wu",
"Chakra Chennubhotla",
"Ivet Bahar",
"Zoltan N. Oltvai"
],
"categories": [
"q-bio.MN",
"q-bio.GN"
],
"doi": "10.1186/1471-2105-7-478",
"journal_ref": "BMC Bioinformatics 2006, 7:478",
"title": "Topological basis of signal integration in the transcriptional-regulatory network of the yeast, Saccharomyces cerevisiae",
"url": "https://arxiv.org/abs/q-bio/0610055"
},
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