Literature DB >> 22060466

Computationally efficient measure of topological redundancy of biological and social networks.

Réka Albert1, Bhaskar DasGupta, Rashmi Hegde, Gowri Sangeetha Sivanathan, Anthony Gitter, Gamze Gürsoy, Pradyut Paul, Eduardo Sontag.   

Abstract

It is well known that biological and social interaction networks have a varying degree of redundancy, though a consensus of the precise cause of this is so far lacking. In this paper, we introduce a topological redundancy measure for labeled directed networks that is formal, computationally efficient, and applicable to a variety of directed networks such as cellular signaling, and metabolic and social interaction networks. We demonstrate the computational efficiency of our measure by computing its value and statistical significance on a number of biological and social networks with up to several thousands of nodes and edges. Our results suggest a number of interesting observations: (1) Social networks are more redundant that their biological counterparts, (2) transcriptional networks are less redundant than signaling networks, (3) the topological redundancy of the C. elegans metabolic network is largely due to its inclusion of currency metabolites, and (4) the redundancy of signaling networks is highly (negatively) correlated with the monotonicity of their dynamics.

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Year:  2011        PMID: 22060466     DOI: 10.1103/PhysRevE.84.036117

Source DB:  PubMed          Journal:  Phys Rev E Stat Nonlin Soft Matter Phys        ISSN: 1539-3755


  8 in total

1.  Detecting network anomalies using Forman-Ricci curvature and a case study for human brain networks.

Authors:  Tanima Chatterjee; Réka Albert; Stuti Thapliyal; Nazanin Azarhooshang; Bhaskar DasGupta
Journal:  Sci Rep       Date:  2021-04-14       Impact factor: 4.379

2.  Algorithmic Perspectives of Network Transitive Reduction Problems and their Applications to Synthesis and Analysis of Biological Networks.

Authors:  Satabdi Aditya; Bhaskar DasGupta; Marek Karpinski
Journal:  Biology (Basel)       Date:  2013-12-19

3.  Assessing statistical significance in causal graphs.

Authors:  Leonid Chindelevitch; Po-Ru Loh; Ahmed Enayetallah; Bonnie Berger; Daniel Ziemek
Journal:  BMC Bioinformatics       Date:  2012-02-20       Impact factor: 3.169

4.  A topological characterization of medium-dependent essential metabolic reactions.

Authors:  Nikolaus Sonnenschein; Carsten Marr; Marc-Thorsten Hütt
Journal:  Metabolites       Date:  2012-09-24

5.  Topology analysis and visualization of Potyvirus protein-protein interaction network.

Authors:  Gabriel Bosque; Abel Folch-Fortuny; Jesús Picó; Alberto Ferrer; Santiago F Elena
Journal:  BMC Syst Biol       Date:  2014-11-20

6.  Systematic comparison of C3 and C4 plants based on metabolic network analysis.

Authors:  Chuanli Wang; Longyun Guo; Yixue Li; Zhuo Wang
Journal:  BMC Syst Biol       Date:  2012-12-12

Review 7.  Stem cell systems informatics for advanced clinical biodiagnostics: tracing molecular signatures from bench to bedside.

Authors:  Randolph S Faustino; D Kent Arrell; Clifford D L Folmes; Andre Terzic; Carmen Perez-Terzic
Journal:  Croat Med J       Date:  2013-08       Impact factor: 1.351

8.  Knowledge-based compact disease models identify new molecular players contributing to early-stage Alzheimer's disease.

Authors:  Anatoly Mayburd; Ancha Baranova
Journal:  BMC Syst Biol       Date:  2013-11-07
  8 in total

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