[HTML][HTML] Identification of critical connectors in the directed reaction-centric graphs of microbial metabolic networks
EY Kim, D Ashlock, SH Yoon - BMC bioinformatics, 2019 - Springer
Background Detection of central nodes in asymmetrically directed biological networks
depends on centrality metrics quantifying individual nodes' importance in a network. In …
depends on centrality metrics quantifying individual nodes' importance in a network. In …
Structural and functional analyses of microbial metabolic networks reveal novel insights into genome-scale metabolic fluxes
We present here an integrated analysis of structures and functions of genome-scale
metabolic networks of 17 microorganisms. Our structural analyses of these networks …
metabolic networks of 17 microorganisms. Our structural analyses of these networks …
The connectivity structure, giant strong component and centrality of metabolic networks
Motivation: Structural and functional analysis of genome-based large-scale metabolic
networks is important for understanding the design principles and regulation of the …
networks is important for understanding the design principles and regulation of the …
[HTML][HTML] Global connectivity in genome-scale metabolic networks revealed by comprehensive FBA-based pathway analysis
Background Graph-based analysis (GBA) of genome-scale metabolic networks has
revealed system-level structures such as the bow-tie connectivity that describes the overall …
revealed system-level structures such as the bow-tie connectivity that describes the overall …
Centrality, network capacity, and modularity as parameters to analyze the core-periphery structure in metabolic networks
Genome-scale metabolic networks of organisms are normally very large and complex.
Previous studies have shown that they are organized in a hierarchical and modular manner …
Previous studies have shown that they are organized in a hierarchical and modular manner …
[HTML][HTML] Graphlet-based characterization of directed networks
We are flooded with large-scale, dynamic, directed, networked data. Analyses requiring
exact comparisons between networks are computationally intractable, so new …
exact comparisons between networks are computationally intractable, so new …
Structural analysis of metabolic networks based on flux centrality
D Koschützki, BH Junker, J Schwender… - Journal of Theoretical …, 2010 - Elsevier
Metabolic reactions are fundamental to living organisms, and a large number of reactions
simultaneously occur at a given time in living cells transforming diverse metabolites into …
simultaneously occur at a given time in living cells transforming diverse metabolites into …
Flux-based classification of reactions reveals a functional bow-tie organization of complex metabolic networks
Unraveling the structure of complex biological networks and relating it to their functional role
is an important task in systems biology. Here we attempt to characterize the functional …
is an important task in systems biology. Here we attempt to characterize the functional …
The strength of chemical linkage as a criterion for pruning metabolic graphs
Motivation: A metabolic graph represents the connectivity patterns of a metabolic system,
and provides a powerful framework within which the organization of metabolic reactions can …
and provides a powerful framework within which the organization of metabolic reactions can …
[HTML][HTML] A topological characterization of medium-dependent essential metabolic reactions
Metabolism has frequently been analyzed from a network perspective. A major question is
how network properties correlate with biological features like growth rates, flux patterns and …
how network properties correlate with biological features like growth rates, flux patterns and …