Literature DB >> 19578172

Cross-scale, cross-pathway evaluation using an agent-based non-small cell lung cancer model.

Zhihui Wang1, Christina M Birch, Jonathan Sagotsky, Thomas S Deisboeck.   

Abstract

We present a multiscale agent-based non-small cell lung cancer model that consists of a 3D environment with which cancer cells interact while processing phenotypic changes. At the molecular level, transforming growth factor beta (TGFbeta) has been integrated into our previously developed in silico model as a second extrinsic input in addition to epidermal growth factor (EGF). The main aim of this study is to investigate how the effects of individual and combinatorial change in EGF and TGFbeta concentrations at the molecular level alter tumor growth dynamics on the multi-cellular level, specifically tumor volume and expansion rate. Our simulation results show that separate EGF and TGFbeta fluctuations trigger competing multi-cellular phenotypes, yet synchronous EGF and TGFbeta signaling yields a spatially more aggressive tumor that overall exhibits an EGF-driven phenotype. By altering EGF and TGFbeta concentration levels simultaneously and asynchronously, we discovered a particular region of EGF-TGFbeta profiles that ensures phenotypic stability of the tumor system. Within this region, concentration changes in EGF and TGFbeta do not impact the resulting multi-cellular response substantially, while outside these concentration ranges, a change at the molecular level will substantially alter either tumor volume or tumor expansion rate, or both. By evaluating tumor growth dynamics across different scales, we show that, under certain conditions, therapeutic targeting of only one signaling pathway may be insufficient. Potential implications of these in silico results for future clinico-pharmacological applications are discussed.

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Year:  2009        PMID: 19578172      PMCID: PMC2735669          DOI: 10.1093/bioinformatics/btp416

Source DB:  PubMed          Journal:  Bioinformatics        ISSN: 1367-4803            Impact factor:   6.937


  52 in total

1.  Computational modeling of the dynamics of the MAP kinase cascade activated by surface and internalized EGF receptors.

Authors:  Birgit Schoeberl; Claudia Eichler-Jonsson; Ernst Dieter Gilles; Gertraud Müller
Journal:  Nat Biotechnol       Date:  2002-04       Impact factor: 54.908

Review 2.  Role of integrins in cell invasion and migration.

Authors:  John D Hood; David A Cheresh
Journal:  Nat Rev Cancer       Date:  2002-02       Impact factor: 60.716

3.  Regulation of actin dynamics in rapidly moving cells: a quantitative analysis.

Authors:  Alex Mogilner; Leah Edelstein-Keshet
Journal:  Biophys J       Date:  2002-09       Impact factor: 4.033

Review 4.  Cytostatic and apoptotic actions of TGF-beta in homeostasis and cancer.

Authors:  Peter M Siegel; Joan Massagué
Journal:  Nat Rev Cancer       Date:  2003-11       Impact factor: 60.716

5.  Evolution of cell motility in an individual-based model of tumour growth.

Authors:  P Gerlee; A R A Anderson
Journal:  J Theor Biol       Date:  2009-03-12       Impact factor: 2.691

Review 6.  Tumour-cell invasion and migration: diversity and escape mechanisms.

Authors:  Peter Friedl; Katarina Wolf
Journal:  Nat Rev Cancer       Date:  2003-05       Impact factor: 60.716

7.  Induction of cancer cell migration by epidermal growth factor is initiated by specific phosphorylation of tyrosine 1248 of c-erbB-2 receptor via EGFR.

Authors:  Thomas Dittmar; Anja Husemann; Yvonne Schewe; Jerzy-Roch Nofer; Bernd Niggemann; Kurt S Zänker; Burkhard H Brandt
Journal:  FASEB J       Date:  2002-09-19       Impact factor: 5.191

Review 8.  Smad-dependent and Smad-independent pathways in TGF-beta family signalling.

Authors:  Rik Derynck; Ying E Zhang
Journal:  Nature       Date:  2003-10-09       Impact factor: 49.962

9.  Epidermal growth factor receptor in non-small-cell lung carcinomas: correlation between gene copy number and protein expression and impact on prognosis.

Authors:  Fred R Hirsch; Marileila Varella-Garcia; Paul A Bunn; Michael V Di Maria; Robert Veve; Roy M Bremmes; Anna E Barón; Chan Zeng; Wilbur A Franklin
Journal:  J Clin Oncol       Date:  2003-09-02       Impact factor: 44.544

10.  The universal dynamics of tumor growth.

Authors:  Antonio Brú; Sonia Albertos; José Luis Subiza; José López García-Asenjo; Isabel Brú
Journal:  Biophys J       Date:  2003-11       Impact factor: 4.033

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  33 in total

1.  Modeling genotypes in their microenvironment to predict single- and multi-cellular behavior.

Authors:  Dimitrios Voukantsis; Kenneth Kahn; Martin Hadley; Rowan Wilson; Francesca M Buffa
Journal:  Gigascience       Date:  2019-03-01       Impact factor: 6.524

Review 2.  Integrated PK-PD and agent-based modeling in oncology.

Authors:  Zhihui Wang; Joseph D Butner; Vittorio Cristini; Thomas S Deisboeck
Journal:  J Pharmacokinet Pharmacodyn       Date:  2015-01-15       Impact factor: 2.745

3.  Discovering Molecular Targets in Cancer with Multiscale Modeling.

Authors:  Zhihui Wang; Veronika Bordas; Thomas S Deisboeck
Journal:  Drug Dev Res       Date:  2011-02-01       Impact factor: 4.360

4.  High-resolution computational modeling of immune responses in the gut.

Authors:  Meghna Verma; Josep Bassaganya-Riera; Andrew Leber; Nuria Tubau-Juni; Stefan Hoops; Vida Abedi; Xi Chen; Raquel Hontecillas
Journal:  Gigascience       Date:  2019-06-01       Impact factor: 6.524

5.  An integrative modeling framework reveals plasticity of TGF-β signaling.

Authors:  Geoffroy Andrieux; Michel Le Borgne; Nathalie Théret
Journal:  BMC Syst Biol       Date:  2014-03-12

Review 6.  Simulating cancer growth with multiscale agent-based modeling.

Authors:  Zhihui Wang; Joseph D Butner; Romica Kerketta; Vittorio Cristini; Thomas S Deisboeck
Journal:  Semin Cancer Biol       Date:  2014-05-02       Impact factor: 15.707

7.  Phenotypic transition maps of 3D breast acini obtained by imaging-guided agent-based modeling.

Authors:  Jonathan Tang; Heiko Enderling; Sabine Becker-Weimann; Christopher Pham; Aris Polyzos; Chen-Yi Chen; Sylvain V Costes
Journal:  Integr Biol (Camb)       Date:  2011-03-04       Impact factor: 2.192

8.  Front instabilities and invasiveness of simulated 3D avascular tumors.

Authors:  Nikodem J Poplawski; Abbas Shirinifard; Ubirajara Agero; J Scott Gens; Maciej Swat; James A Glazier
Journal:  PLoS One       Date:  2010-05-26       Impact factor: 3.240

9.  Using partial least squares regression to analyze cellular response data.

Authors:  Pamela K Kreeger
Journal:  Sci Signal       Date:  2013-04-16       Impact factor: 8.192

Review 10.  Cancer systems biology: a network modeling perspective.

Authors:  Pamela K Kreeger; Douglas A Lauffenburger
Journal:  Carcinogenesis       Date:  2009-10-27       Impact factor: 4.944

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