Bayesian Network Approach to Cell Signaling Pathway Modeling

Keywords

Focal adhesion, Computer science, MAPK/ERK pathway, Signal transduction, Computational biology

References

• Integrin signaling: specificity and control of cell survival and cell cycle progression.Andrew M. Michael — 1997
• Quantitative Relationship among Integrin-Ligand Binding, Adhesion, and Signaling via Focal Adhesion Kinase and Extracellular Signal-regulated Kinase 2*MeridaGOround — 1999
• Principled computational methods for the validation discovery of genetic regulatory networksAlexander J. Hartemink, David K. Gifford — 2001
• A Bayesian method for the induction of probabilistic networks from dataGregory F. Cooper, Edward H. Herskovits — 1992
• Integrin-mediated signal transduction linked to Ras pathway by GRB2 binding to focal adhesion kinaseDavid D. Schlaepfer, Steven K. Hanks, Tony Hunter — 1994
• Using Graphical Models and Genomic Expression Data to Statistically Validate Models of Genetic Regulatory NetworksAlexander J. Hartemink, David K. Gifford, Tommi Jaakkola — 2000
• Computational modeling of the dynamics of the MAP kinase cascade activated by surface and internalized EGF receptorsBirgit Schoeberl, Claudia Eichler-Jonsson, Ernst Dieter Gilles — 2002
• Using Bayesian Networks to Analyze Expression DataNir Friedman, Michal Linial, Iftach Nachman — 2000
• Shape-dependent control of cell growth, differentiation, and apoptosis: switching between attractors in cell regulatory networks.Sui Huang, Donald E. Ingber — 2000
• Bioengineering models of cell signaling.Anand R. Asthagiri, Douglas A. Lauffenburger — 2000
• The adaptor protein Shc couples a class of integrins to the control of cell cycle progression.Kishore K. Wary, Fabrizio Mainiero, Steven J. Isakoff — 1996
• Evidence for in vivo phosphorylation of the Grb2 SH2-domain binding site on focal adhesion kinase by Src-family protein-tyrosine kinasesDavid D. Schlaepfer, Tony Hunter — 1996
• A new approach to decoding life: systems biology.Trey Ideker, Timothy Galitski, Leroy Hood — 2001
• Integrin-mediated Activation of MAP Kinase Is Independent of FAK: Evidence for Dual Integrin Signaling Pathways in FibroblastsTsung H. Lin, Andrew E. Aplin, Yu Shen — 1997
• Rich probabilistic models for gene expressionEran Segal, Ben Taskar, Audrey P. Gasch — 2001
• Protein-tyrosine kinases.Tony Hunter, Jonathan A. Cooper — 1985
• A Tutorial on Learning with Bayesian NetworksD. Heckerman — 1999

Cited by

• Identification of Relevant Protein-Gene Associations by Integrating Gene Expression Data and Transcriptional Regulatory Networks.Angel A. Alvarez — 2010
• Integrated Inference and Analysis of Regulatory Networks from Multi-Level MeasurementsChristopher S. Poultney, Alex Greenfield, Richard Bonneau — 2012
• Mechanistic Bayesian Networks for Integrating Knowledge and Data to Unravel Biological ComplexityAbhik Shah — 2011
• Engineered cell-based therapies: a vanguard of design-driven medicine.Rachel M. Dudek, Yishan Chuang, Joshua N. Leonard — 2014
• Insulin signaling dynamics in human adipocytes : Mathematical modeling reveals mechanisms of insulin resistance in type 2 diabetesElin Nyman — 2014
• Zooming out of membrane graph transformation systemsMayur Bapodra — 2013
• A Study Of Cell Growth, Division And Programmed Differentiation By Simulation And Experiments.S. Nayak — 2010
• USE OF APRIORI KNOWLEDGE ON DYNAMIC BAYESIAN MODELS IN TIME-COURSE EXPRESSION DATA PREDICTIONG. Kilaru — 2012
• Spatially resolving the dynamics and structure of protein networks in adhesion sitesR. Sheriff, E. Zamir, P. Bastiaens — 2014
• Algorithms for Internal Validation Clustering Measures in the Post Genomic EraFilippo Utro — 2011
• Quantitative analysis of the cytokine-mediated apoptosis-survival cell decision processKevin A. Janes — 2005
• Networks Inferred from Biochemical Data Reveal Profound Differences in Toll-like Receptor and Inflammatory Signaling between Normal and Transformed HepatocytesLeonidas G. Alexopoulos, Julio Sáez-Rodríguez, Benjamin D. Cosgrove — 2010
• A Bio-inspired Distributed Control Architecture: Coupled Artificial Signalling NetworksLuis A. Fuente — 2014
• Experiment design for systems biologyJ. Apgar — 2009
• Selecting high-confidence predictions from ordinary differential equation models of biological networksBruce Tidor, Caitlin Anne Bever — 2008
• Theoretical Issues for Global Cumulative Treatment Analysis (GCTA)Jeff Shrager — 2013
• Boosting Probabilistic Graphical Model Inference by Incorporating Prior Knowledge from Multiple SourcesPaurush Praveen, Holger Fröhlich — 2013
• Oncogenic NRAS Signaling Differentially Regulates Survival and Proliferation in MelanomaLawrence N. Kwong, James C. Costello, Huiyun Liu — 2012
• Simplistic pathways or complex networks?Claus Jørgensen, Rune Linding — 2010
• Understanding Complex Regulatory Systems: Integrating Molecular Biology and Systems AnalysisGennady Bocharov — 2005

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