Literature DB >> 22908211

Structural and dynamical analysis of biological networks.

Cecilia Klein1, Andrea Marino, Marie-France Sagot, Paulo Vieira Milreu, Matteo Brilli.   

Abstract

Biological networks are currently being studied with approaches derived from the mathematical and physical sciences. Their structural analysis enables to highlight nodes with special properties that have sometimes been correlated with the biological importance of a gene or a protein. However, biological networks are dynamic both on the evolutionary time-scale, and on the much shorter time-scale of physiological processes. There is therefore no unique network for a given cellular process, but potentially many realizations, each with different properties as a consequence of regulatory mechanisms. Such realizations provide snapshots of a same network in different conditions, enabling the study of condition-dependent structural properties. True dynamical analysis can be obtained through detailed mathematical modeling techniques that are not easily scalable to full network models.

Mesh:

Year:  2012        PMID: 22908211     DOI: 10.1093/bfgp/els030

Source DB:  PubMed          Journal:  Brief Funct Genomics        ISSN: 2041-2649            Impact factor:   4.241


  7 in total

1.  PANET: a GPU-based tool for fast parallel analysis of robustness dynamics and feed-forward/feedback loop structures in large-scale biological networks.

Authors:  Hung-Cuong Trinh; Duc-Hau Le; Yung-Keun Kwon
Journal:  PLoS One       Date:  2014-07-24       Impact factor: 3.240

2.  Properties of Boolean dynamics by node classification using feedback loops in a network.

Authors:  Yung-Keun Kwon
Journal:  BMC Syst Biol       Date:  2016-08-24

3.  Construction and analysis of gene-gene dynamics influence networks based on a Boolean model.

Authors:  Maulida Mazaya; Hung-Cuong Trinh; Yung-Keun Kwon
Journal:  BMC Syst Biol       Date:  2017-12-21

4.  A novel network-based approach for discovering dynamic metabolic biomarkers in cardiovascular disease.

Authors:  Christian Baumgartner; Verena Spath-Blass; Verena Niederkofler; Katharina Bergmoser; Sonja Langthaler; Alexander Lassnig; Theresa Rienmüller; Daniela Baumgartner; Aarti Asnani; Robert E Gerszten
Journal:  PLoS One       Date:  2018-12-11       Impact factor: 3.240

5.  Challenges and opportunities in network-based solutions for biological questions.

Authors:  Margaret G Guo; Daniel N Sosa; Russ B Altman
Journal:  Brief Bioinform       Date:  2022-01-17       Impact factor: 13.994

6.  In Silico Pleiotropy Analysis in KEGG Signaling Networks Using a Boolean Network Model.

Authors:  Maulida Mazaya; Yung-Keun Kwon
Journal:  Biomolecules       Date:  2022-08-18

Review 7.  Visualizing genome and systems biology: technologies, tools, implementation techniques and trends, past, present and future.

Authors:  Georgios A Pavlopoulos; Dimitris Malliarakis; Nikolas Papanikolaou; Theodosis Theodosiou; Anton J Enright; Ioannis Iliopoulos
Journal:  Gigascience       Date:  2015-08-25       Impact factor: 6.524

  7 in total

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