Biological Networks: The Tinkerer as an Engineer

By Uri Alon. Science, 2003

691 citations recorded by the source corpus.

Subfields: Biophysics, Molecular Biology

View Paper: https://www.semanticscholar.org/paper/d4db8ea151c3194891ff5a22d112fd00867f15af

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In Biophysics

In Molecular Biology

Citations in the corpus

Integrative approaches for finding modular structure in biological networks (2013, background): “Cellular organization is thought to be fundamentally modular 1,2 .”
The evolutionary origins of modularity (2012, background): “Connections are added between two randomly chosen nodes that are not already connected and belong to two consecutive layers (to maintain the feed-forward property described previously); (2) each network has a 20% chance of a single, randomly chosen connection being removed; (3) each node in the netw”
The Importance of Neurophysiological Constraints for Modelling the Emergence of Modularity (background): “…evolution (e.g., Holland, 2003), but having demonstrated how simple low level modules can emerge, it is reasonable to conjecture that evolution will find ways of using them as building blocks for creating higher level modules, and eventually whole brains as they exist today (e.g., Alon, 2003).”
Colloquium: Criticality and dynamical scaling in living systems (2017, background): “…can emerge in hierarchical modular networks (as discussed e.g. in 18 Biology is “modular” in many aspects (Alon, 2006; Ravasz et al., 2002), meaning that some components in biological networks (nodes) are connected among themselves more often or more strongly that they do with others (Alon, 2003).”
Graph theory and networks in Biology. (2006, background): “In particular, we discuss recent work on identifying and modelling the structure of bio-molecular networks, as well as the application of centrality measures to interaction networks and research on the hierarchical structure of such networks and network motifs.”
The dynamics of animal social networks: analytical, conceptual, and theoretical advances (2014, positive): “Network theory provides a holistic way to connect the functionality of a group to the behavior of its constituent individuals (Alon 2003; Fewell 2003).”
Latent social structure in open source projects (2008, background): “Community structure has been studied in various settings [3, 39, 27, 4, 58] due to advances in methods of identifying these structures [64, 65, 51, 15, 50].”
The properties of high-dimensional data spaces: implications for exploring gene and protein expression data (2008, background): “Network modularity is a manifestation of scale-free network connectivity78,79.”
Systems biology approaches for advancing the discovery of effective drug combinations (2015, background): “Motifs can affect network properties such as signal filtering, acceleration, pulse generation, ultra-sensitivity, stability, and robustness [38-40].”
Molecular ecological network analyses (2012, background): “Modularity is a fundamental characteristics of biological networks as well as many engineering systems [53].”