dorsal/arxiv
View SchemaFunctional alignment of regulatory networks: A study of temperate phages
| Authors | Ala Trusina, Kim Sneppen, Ian B. Dodd, Keith E. Shearwin, J. Barry Egan |
|---|---|
| Categories | |
| ArXiv ID | q-bio/0511047 |
| URL | https://arxiv.org/abs/q-bio/0511047 |
| DOI | 10.1371/journal.pcbi.0010074 |
Abstract
The relationship between the design and functionality of molecular networks is now a key issue in biology. Comparison of regulatory networks performing similar tasks can give insights into how network architecture is constrained by the functions it directs. We here discuss methods of network comparison based on network architecture and signaling logic. Introducing local and global signaling scores for the difference between two networks we quantify similarities between evolutionary closely and distantly related bacteriophages. Despite the large evolutionary separation between phage $\lambda$ and 186 their networks are found to be similar when difference is measured in terms of global signaling. We finally discuss how network alignment can be used to to pinpoint protein similarities viewed from the network perspective.
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"date_created": "2026-03-02T18:01:35.126000Z",
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"abstract": "The relationship between the design and functionality of molecular networks\nis now a key issue in biology. Comparison of regulatory networks performing\nsimilar tasks can give insights into how network architecture is constrained by\nthe functions it directs. We here discuss methods of network comparison based\non network architecture and signaling logic. Introducing local and global\nsignaling scores for the difference between two networks we quantify\nsimilarities between evolutionary closely and distantly related bacteriophages.\nDespite the large evolutionary separation between phage $\\lambda$ and 186 their\nnetworks are found to be similar when difference is measured in terms of global\nsignaling. We finally discuss how network alignment can be used to to pinpoint\nprotein similarities viewed from the network perspective.",
"arxiv_id": "q-bio/0511047",
"authors": [
"Ala Trusina",
"Kim Sneppen",
"Ian B. Dodd",
"Keith E. Shearwin",
"J. Barry Egan"
],
"categories": [
"q-bio.MN",
"cond-mat.other",
"q-bio.GN",
"q-bio.OT"
],
"doi": "10.1371/journal.pcbi.0010074",
"title": "Functional alignment of regulatory networks: A study of temperate phages",
"url": "https://arxiv.org/abs/q-bio/0511047"
},
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