Literature DB >> 20513250

Network integration meets network dynamics.

Teresa M Przytycka1, Yoo-Ah Kim.   

Abstract

Molecular interaction networks provide a window on the workings of the cell. However, combining various types of networks into one coherent large-scale dynamic model remains a formidable challenge. A recent paper in BMC Systems Biology describes a promising step in this direction.

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Year:  2010        PMID： 20513250      PMCID： PMC2861031          DOI： 10.1186/1741-7007-8-48

Source DB:  PubMed          Journal:  BMC Biol        ISSN： 1741-7007            Impact factor:   7.431


  10 in total

1.  Regulation of gene expression in flux balance models of metabolism.

Authors:  M W Covert; C H Schilling; B Palsson
Journal:  J Theor Biol       Date:  2001-11-07       Impact factor: 2.691

Review 2.  Network dynamics and cell physiology.

Authors:  J J Tyson; K Chen; B Novak
Journal:  Nat Rev Mol Cell Biol       Date:  2001-12       Impact factor: 94.444

3.  Constraints-based models: regulation of gene expression reduces the steady-state solution space.

Authors:  Markus W Covert; Bernhard O Palsson
Journal:  J Theor Biol       Date:  2003-04-07       Impact factor: 2.691

Review 4.  Toward the dynamic interactome: it's about time.

Authors:  Teresa M Przytycka; Mona Singh; Donna K Slonim
Journal:  Brief Bioinform       Date:  2010-01-08       Impact factor: 11.622

Review 5.  Modelling and analysis of gene regulatory networks.

Authors:  Guy Karlebach; Ron Shamir
Journal:  Nat Rev Mol Cell Biol       Date:  2008-09-17       Impact factor: 94.444

6.  Genomic expression programs in the response of yeast cells to environmental changes.

Authors:  A P Gasch; P T Spellman; C M Kao; O Carmel-Harel; M B Eisen; G Storz; D Botstein; P O Brown
Journal:  Mol Biol Cell       Date:  2000-12       Impact factor: 4.138

7.  Integrated cellular network of transcription regulations and protein-protein interactions.

Authors:  Yu-Chao Wang; Bor-Sen Chen
Journal:  BMC Syst Biol       Date:  2010-03-08

8.  Identifying causal genes and dysregulated pathways in complex diseases.

Authors:  Yoo-Ah Kim; Stefan Wuchty; Teresa M Przytycka
Journal:  PLoS Comput Biol       Date:  2011-03-03       Impact factor: 4.475

9.  A genome-scale computational study of the interplay between transcriptional regulation and metabolism.

Authors:  Tomer Shlomi; Yariv Eisenberg; Roded Sharan; Eytan Ruppin
Journal:  Mol Syst Biol       Date:  2007-04-17       Impact factor: 11.429

10.  Information flow analysis of interactome networks.

Authors:  Patrycja Vasilyev Missiuro; Kesheng Liu; Lihua Zou; Brian C Ross; Guoyan Zhao; Jun S Liu; Hui Ge
Journal:  PLoS Comput Biol       Date:  2009-04-10       Impact factor: 4.475
  10 in total
  11 in total

1.  A conceptual review on systems biology in health and diseases: from biological networks to modern therapeutics.

Authors:  Pramod Rajaram Somvanshi; K V Venkatesh
Journal:  Syst Synth Biol       Date:  2013-09-18

Review 2.  Biological networks in ischemic tolerance - rethinking the approach to clinical conditioning.

Authors:  Josef Anrather; John M Hallenbeck
Journal:  Transl Stroke Res       Date:  2013-02       Impact factor: 6.829

3.  Towards the identification of protein complexes and functional modules by integrating PPI network and gene expression data.

Authors:  Min Li; Xuehong Wu; Jianxin Wang; Yi Pan
Journal:  BMC Bioinformatics       Date:  2012-05-23       Impact factor: 3.169

4.  Investigating the specific core genetic-and-epigenetic networks of cellular mechanisms involved in human aging in peripheral blood mononuclear cells.

Authors:  Cheng-Wei Li; Wen-Hsin Wang; Bor-Sen Chen
Journal:  Oncotarget       Date:  2016-02-23

5.  Constructing an integrated genetic and epigenetic cellular network for whole cellular mechanism using high-throughput next-generation sequencing data.

Authors:  Bor-Sen Chen; Cheng-Wei Li
Journal:  BMC Syst Biol       Date:  2016-02-20

6.  The post-genomic era of biological network alignment.

Authors:  Fazle E Faisal; Lei Meng; Joseph Crawford; Tijana Milenković
Journal:  EURASIP J Bioinform Syst Biol       Date:  2015-06-04

7.  Alignment of dynamic networks.

Authors:  V Vijayan; D Critchlow; T Milenkovic
Journal:  Bioinformatics       Date:  2017-07-15       Impact factor: 6.937

8.  Identification of Major Signaling Pathways in Prion Disease Progression Using Network Analysis.

Authors:  Khalique Newaz; K Sriram; Debajyoti Bera
Journal:  PLoS One       Date:  2015-12-08       Impact factor: 3.240

9.  TEMPI: probabilistic modeling time-evolving differential PPI networks with multiPle information.

Authors:  Yongsoo Kim; Jin-Hyeok Jang; Seungjin Choi; Daehee Hwang
Journal:  Bioinformatics       Date:  2014-09-01       Impact factor: 6.937

10.  Investigating core genetic-and-epigenetic cell cycle networks for stemness and carcinogenic mechanisms, and cancer drug design using big database mining and genome-wide next-generation sequencing data.

Authors:  Cheng-Wei Li; Bor-Sen Chen
Journal:  Cell Cycle       Date:  2016-06-13       Impact factor: 4.534
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