Literature DB >> 17426388

Modelling spatio-temporal interactions within the cell.

Padmini Rangamani1, Ravi Iyengar.   

Abstract

Biological phenomena at the cellular level can be represented by various types of mathematical formulations. Such representations allow us to carry out numerical simulations that provide mechanistic insights into complex behaviours of biological systems and also generate hypotheses that can be experimentally tested. Currently, we are particularly interested in spatio-temporal representations of dynamic cellular phenomena and how such models can be used to understand biological specificity in functional responses. This review describes the capability and limitations of the approaches used to study spatio-temporal dynamics of cell signalling components.

Mesh:

Year:  2007        PMID: 17426388     DOI: 10.1007/s12038-007-0014-3

Source DB:  PubMed          Journal:  J Biosci        ISSN: 0250-5991            Impact factor:   1.826


  25 in total

Review 1.  Functional modules in biological signalling networks.

Authors:  U S Bhalla; R Iyengar
Journal:  Novartis Found Symp       Date:  2001

2.  Bistability in cell signaling: How to make continuous processes discontinuous, and reversible processes irreversible.

Authors:  James E. Ferrell; Wen Xiong
Journal:  Chaos       Date:  2001-03       Impact factor: 3.642

3.  Modeling regulatory mechanisms in IL-6 signal transduction in hepatocytes.

Authors:  Abhay Singh; Arul Jayaraman; Juergen Hahn
Journal:  Biotechnol Bioeng       Date:  2006-12-05       Impact factor: 4.530

Review 4.  Space as the final frontier in stochastic simulations of biological systems.

Authors:  Caroline Lemerle; Barbara Di Ventura; Luis Serrano
Journal:  FEBS Lett       Date:  2005-03-21       Impact factor: 4.124

5.  Formation of regulatory patterns during signal propagation in a Mammalian cellular network.

Authors:  Avi Ma'ayan; Sherry L Jenkins; Susana Neves; Anthony Hasseldine; Elizabeth Grace; Benjamin Dubin-Thaler; Narat J Eungdamrong; Gehzi Weng; Prahlad T Ram; J Jeremy Rice; Aaron Kershenbaum; Gustavo A Stolovitzky; Robert D Blitzer; Ravi Iyengar
Journal:  Science       Date:  2005-08-12       Impact factor: 47.728

6.  Modeling of ATP-mediated signal transduction and wave propagation in astrocytic cellular networks.

Authors:  Michail Stamatakis; Nikos V Mantzaris
Journal:  J Theor Biol       Date:  2006-02-07       Impact factor: 2.691

7.  Spatiotemporal dynamics of RhoA activity in migrating cells.

Authors:  Olivier Pertz; Louis Hodgson; Richard L Klemke; Klaus M Hahn
Journal:  Nature       Date:  2006-03-19       Impact factor: 49.962

Review 8.  Computational modeling of the EGF-receptor system: a paradigm for systems biology.

Authors:  H Steven Wiley; Stanislav Y Shvartsman; Douglas A Lauffenburger
Journal:  Trends Cell Biol       Date:  2003-01       Impact factor: 20.808

Review 9.  A three-state receptor model of agonist action.

Authors:  P Leff; C Scaramellini; C Law; K McKechnie
Journal:  Trends Pharmacol Sci       Date:  1997-10       Impact factor: 14.819

10.  Signal dynamics in Sonic hedgehog tissue patterning.

Authors:  Krishanu Saha; David V Schaffer
Journal:  Development       Date:  2006-02-01       Impact factor: 6.868

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  7 in total

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Authors:  Lopamudra Giri; Anilkumar K Patel; W K Ajith Karunarathne; Vani Kalyanaraman; K V Venkatesh; N Gautam
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2.  Modeling and Simulation of Intracellular Drug Transport and Disposition Pathways with Virtual Cell.

Authors:  Jason Baik; Gus R Rosania
Journal:  J Pharm Pharmacol (Los Angel)       Date:  2013-09-13

Review 3.  The natural and engineered 3D microenvironment as a regulatory cue during stem cell fate determination.

Authors:  Amanda W Lund; Bülent Yener; Jan P Stegemann; George E Plopper
Journal:  Tissue Eng Part B Rev       Date:  2009-09       Impact factor: 6.389

4.  A Probabilistic Boolean Network Approach for the Analysis of Cancer-Specific Signalling: A Case Study of Deregulated PDGF Signalling in GIST.

Authors:  Panuwat Trairatphisan; Monique Wiesinger; Christelle Bahlawane; Serge Haan; Thomas Sauter
Journal:  PLoS One       Date:  2016-05-27       Impact factor: 3.240

5.  A predictive computational model reveals that GIV/girdin serves as a tunable valve for EGFR-stimulated cyclic AMP signals.

Authors:  Michael Getz; Lee Swanson; Debashish Sahoo; Pradipta Ghosh; Padmini Rangamani
Journal:  Mol Biol Cell       Date:  2019-04-24       Impact factor: 4.138

6.  Smeared Multiscale Finite Element Models for Mass Transport and Electrophysiology Coupled to Muscle Mechanics.

Authors:  Milos Kojic; Miljan Milosevic; Vladimir Simic; Bogdan Milicevic; Vladimir Geroski; Sara Nizzero; Arturas Ziemys; Nenad Filipovic; Mauro Ferrari
Journal:  Front Bioeng Biotechnol       Date:  2019-12-10

7.  Extraction of elementary rate constants from global network analysis of E. coli central metabolism.

Authors:  Jiao Zhao; Douglas Ridgway; Gordon Broderick; Andriy Kovalenko; Michael Ellison
Journal:  BMC Syst Biol       Date:  2008-05-07
  7 in total

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