Circuits with broken fibration symmetries perform core logic computations in biological networks.

We show that logic computational circuits in gene regulatory networks arise from a fibration symmetry breaking in the network structure. From this idea we implement a constructive procedure that reveals a hierarchy of genetic circuits, ubiquitous across species, that are surprising analogues to the...

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Autores principales:	Ian Leifer, Flaviano Morone, Saulo D S Reis, José S Andrade, Mariano Sigman, Hernán A Makse
Formato:	article
Lenguaje:	EN
Publicado:	Public Library of Science (PLoS) 2020
Materias:	Biology (General) QH301-705.5
Acceso en línea:	https://doaj.org/article/07030fc7a88f43a896f02137140d7961
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spelling	oai:doaj.org-article:07030fc7a88f43a896f02137140d79612021-12-02T19:58:15ZCircuits with broken fibration symmetries perform core logic computations in biological networks.1553-734X1553-735810.1371/journal.pcbi.1007776https://doaj.org/article/07030fc7a88f43a896f02137140d79612020-06-01T00:00:00Zhttps://doi.org/10.1371/journal.pcbi.1007776https://doaj.org/toc/1553-734Xhttps://doaj.org/toc/1553-7358We show that logic computational circuits in gene regulatory networks arise from a fibration symmetry breaking in the network structure. From this idea we implement a constructive procedure that reveals a hierarchy of genetic circuits, ubiquitous across species, that are surprising analogues to the emblematic circuits of solid-state electronics: starting from the transistor and progressing to ring oscillators, current-mirror circuits to toggle switches and flip-flops. These canonical variants serve fundamental operations of synchronization and clocks (in their symmetric states) and memory storage (in their broken symmetry states). These conclusions introduce a theoretically principled strategy to search for computational building blocks in biological networks, and present a systematic route to design synthetic biological circuits.Ian LeiferFlaviano MoroneSaulo D S ReisJosé S AndradeMariano SigmanHernán A MaksePublic Library of Science (PLoS)articleBiology (General)QH301-705.5ENPLoS Computational Biology, Vol 16, Iss 6, p e1007776 (2020)
institution	DOAJ
collection	DOAJ
language	EN
topic	Biology (General) QH301-705.5
spellingShingle	Biology (General) QH301-705.5 Ian Leifer Flaviano Morone Saulo D S Reis José S Andrade Mariano Sigman Hernán A Makse Circuits with broken fibration symmetries perform core logic computations in biological networks.
description	We show that logic computational circuits in gene regulatory networks arise from a fibration symmetry breaking in the network structure. From this idea we implement a constructive procedure that reveals a hierarchy of genetic circuits, ubiquitous across species, that are surprising analogues to the emblematic circuits of solid-state electronics: starting from the transistor and progressing to ring oscillators, current-mirror circuits to toggle switches and flip-flops. These canonical variants serve fundamental operations of synchronization and clocks (in their symmetric states) and memory storage (in their broken symmetry states). These conclusions introduce a theoretically principled strategy to search for computational building blocks in biological networks, and present a systematic route to design synthetic biological circuits.
format	article
author	Ian Leifer Flaviano Morone Saulo D S Reis José S Andrade Mariano Sigman Hernán A Makse
author_facet	Ian Leifer Flaviano Morone Saulo D S Reis José S Andrade Mariano Sigman Hernán A Makse
author_sort	Ian Leifer
title	Circuits with broken fibration symmetries perform core logic computations in biological networks.
title_short	Circuits with broken fibration symmetries perform core logic computations in biological networks.
title_full	Circuits with broken fibration symmetries perform core logic computations in biological networks.
title_fullStr	Circuits with broken fibration symmetries perform core logic computations in biological networks.
title_full_unstemmed	Circuits with broken fibration symmetries perform core logic computations in biological networks.
title_sort	circuits with broken fibration symmetries perform core logic computations in biological networks.
publisher	Public Library of Science (PLoS)
publishDate	2020
url	https://doaj.org/article/07030fc7a88f43a896f02137140d7961
work_keys_str_mv	AT ianleifer circuitswithbrokenfibrationsymmetriesperformcorelogiccomputationsinbiologicalnetworks AT flavianomorone circuitswithbrokenfibrationsymmetriesperformcorelogiccomputationsinbiologicalnetworks AT saulodsreis circuitswithbrokenfibrationsymmetriesperformcorelogiccomputationsinbiologicalnetworks AT josesandrade circuitswithbrokenfibrationsymmetriesperformcorelogiccomputationsinbiologicalnetworks AT marianosigman circuitswithbrokenfibrationsymmetriesperformcorelogiccomputationsinbiologicalnetworks AT hernanamakse circuitswithbrokenfibrationsymmetriesperformcorelogiccomputationsinbiologicalnetworks
_version_	1718375761558110208

Circuits with broken fibration symmetries perform core logic computations in biological networks.

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