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Physical Review E
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Physical Review E
Article . 2004 . Peer-reviewed
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https://dx.doi.org/10.48550/ar...
Article . 2003
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Topological generalizations of network motifs

Authors: Uri Alon; Nadav Kashtan; Ron Milo; Shalev Itzkovitz;

Topological generalizations of network motifs

Abstract

Biological and technological networks contain patterns, termed network motifs, which occur far more often than in randomized networks. Network motifs were suggested to be elementary building blocks that carry out key functions in the network. It is of interest to understand how network motifs combine to form larger structures. To address this, we present a systematic approach to define 'motif generalizations': families of motifs of different sizes that share a common architectural theme. To define motif generalizations, we first define 'roles' in a subgraph according to structural equivalence. For example, the feedforward loop triad, a motif in transcription, neuronal and some electronic networks, has three roles, an input node, an output node and an internal node. The roles are used to define possible generalizations of the motif. The feedforward loop can have three simple generalizations, based on replicating each of the three roles and their connections. We present algorithms for efficiently detecting motif generalizations. We find that the transcription networks of bacteria and yeast display only one of the three generalizations, the multi-output feedforward generalization. In contrast, the neuronal network of \emph{C. elegans} mainly displays the multi-input generalization. Forward-logic electronic circuits display a multi-input, multi-output hybrid. Thus, networks which share a common motif can have very different generalizations of that motif. Using mathematical modelling, we describe the information processing functions of the different motif generalizations in transcription, neuronal and electronic networks.

Keywords

Neurons, Transcription, Genetic, Statistical Mechanics (cond-mat.stat-mech), Molecular Networks (q-bio.MN), FOS: Physical sciences, Models, Biological, Cell Physiological Phenomena, Logistic Models, FOS: Biological sciences, Quantitative Biology - Molecular Networks, Computer Simulation, Electronics, Nerve Net, Condensed Matter - Statistical Mechanics, Algorithms, Signal Transduction

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    155
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    Top 10%
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citations
This is an alternative to the "Influence" indicator, which also reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Citations provided by BIP!
popularity
This indicator reflects the "current" impact/attention (the "hype") of an article in the research community at large, based on the underlying citation network.
BIP!Popularity provided by BIP!
influence
This indicator reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Influence provided by BIP!
impulse
This indicator reflects the initial momentum of an article directly after its publication, based on the underlying citation network.
BIP!Impulse provided by BIP!
155
Top 10%
Top 10%
Top 1%
Green
bronze