Murat Cirit

Works (7)

Updated: July 5th, 2023 15:50

2014 article

Data‐driven modeling reconciles kinetics of ERK phosphorylation, localization, and activity states

Ahmed, S., Grant, K. G., Edwards, L. E., Rahman, A., Cirit, M., Goshe, M. B., & Haugh, J. M. (2014, January 1). Molecular Systems Biology, Vol. 10, pp. 718–718.

By: S. Ahmed n, K. Grant n, L. Edwards  n, A. Rahman n, M. Cirit n, M. Goshe n, J. Haugh n 

author keywords: growth factor receptors; mitogen-activated protein kinases; negative feedback; nucleocytoplasmic shuttling; mathematical model
MeSH headings : Active Transport, Cell Nucleus; Animals; Extracellular Signal-Regulated MAP Kinases / chemistry; Extracellular Signal-Regulated MAP Kinases / metabolism; Feedback, Physiological; Kinetics; Mice; Models, Theoretical; NIH 3T3 Cells; Phosphorylation; Protein Transport / genetics; Receptors, Growth Factor / genetics; Signal Transduction / genetics
topics (OpenAlex): Cellular Mechanics and Interactions; Melanoma and MAPK Pathways; Cell Image Analysis Techniques
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Sources: Web Of Science, ORCID, NC State University Libraries
Added: August 6, 2018

2012 article

Systemic Perturbation of the ERK Signaling Pathway by the Proteasome Inhibitor, MG132

Cirit, M., Grant, K. G., & Haugh, J. M. (2012, November 30). (L. Buday, Ed.). PLoS ONE, Vol. 7, p. e50975.

By: M. Cirit n, K. Grant n & J. Haugh n 

Ed(s): L. Buday

MeSH headings : Animals; Computer Simulation; Dual-Specificity Phosphatases / metabolism; Embryo, Mammalian / cytology; Enzyme Activation / drug effects; Fibroblast Growth Factors / pharmacology; Fibroblasts / cytology; Fibroblasts / drug effects; Fibroblasts / enzymology; Humans; Leupeptins / pharmacology; MAP Kinase Signaling System / drug effects; Mesoderm / cytology; Mice; Mitogen-Activated Protein Kinase Kinases / metabolism; NIH 3T3 Cells; Phosphorylation / drug effects; Platelet-Derived Growth Factor / pharmacology; Proteasome Inhibitors / pharmacology; Up-Regulation / drug effects
topics (OpenAlex): Ubiquitin and proteasome pathways; Protein Tyrosine Phosphatases; 14-3-3 protein interactions
TL;DR: It is shown that the effects of MG132 treatment on ERK signaling are more widespread, leading to a reduction in activation of the upstream kinase MEK, suggesting that MG132 systemically perturbs the intracellular phosphoproteome, impactingERK signaling by reducing phosphorylation status at multiple levels of the kinase cascade. (via Semantic Scholar)
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3. Good Health and Well-being (Web of Science; OpenAlex)
Sources: Web Of Science, ORCID, NC State University Libraries
Added: August 6, 2018

2011 article

Data-driven modelling of receptor tyrosine kinase signalling networks quantifies receptor-specific potencies of PI3K- and Ras-dependent ERK activation

Cirit, M., & Haugh, J. M. (2011, September 27). Biochemical Journal, Vol. 441, pp. 77–85.

By: M. Cirit n & J. Haugh n 

author keywords: computational biology; cross-talk; growth factor; kinetic analysis; mitogen-activated protein kinase (MAPK); receptor tyrosine kinase
MeSH headings : Animals; Becaplermin; Computer Simulation; Extracellular Signal-Regulated MAP Kinases / genetics; Extracellular Signal-Regulated MAP Kinases / metabolism; Fibroblast Growth Factor 2 / genetics; Fibroblast Growth Factor 2 / metabolism; Fibroblasts / metabolism; Gene Expression Regulation, Enzymologic; Humans; Kinetics; Mice; Models, Biological; NIH 3T3 Cells; Phosphatidylinositol 3-Kinases / genetics; Phosphatidylinositol 3-Kinases / metabolism; Proto-Oncogene Proteins c-sis / genetics; Proto-Oncogene Proteins c-sis / metabolism; Receptor Protein-Tyrosine Kinases / genetics; Receptor Protein-Tyrosine Kinases / metabolism; Receptors, Fibroblast Growth Factor / genetics; Receptors, Fibroblast Growth Factor / metabolism; Signal Transduction
topics (OpenAlex): PI3K/AKT/mTOR signaling in cancer; Protein Kinase Regulation and GTPase Signaling; Receptor Mechanisms and Signaling
TL;DR: It is shown that, whereas the FGF stimulation of PI3K signalling is relatively weak, this deficiency is compensated for by a more potent Ras-dependent activation of ERK, and the ERK pathway is activated to a greater extent in cells co-stimulated with FGF and PDGF, relative to the saturated levels achieved with either ligand alone. (via Semantic Scholar)
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Sources: Web Of Science, ORCID, NC State University Libraries
Added: August 6, 2018

2011 article

PI3K‐dependent cross‐talk interactions converge with Ras as quantifiable inputs integrated by Erk

Wang, C. C., Cirit, M., & Haugh, J. M. (2011, January 1). Molecular Systems Biology, Vol. 7, pp. 524–524.

By: C. Wang n, M. Cirit n & J. Haugh n 

topics (OpenAlex): Cellular transport and secretion; Gene Regulatory Network Analysis; CRISPR and Genetic Engineering
TL;DR: The effects of expressing wild-type and genuine G12V H-Ras in the authors' cells, using the samemethods as in the published article, are presented. (via Semantic Scholar)
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Sources: Web Of Science, ORCID, NC State University Libraries
Added: August 6, 2018

2010 article

Allosteric Modulation of Ras-GTP Is Linked to Signal Transduction through RAF Kinase

Buhrman, G., Kumar, V. S. S., Cirit, M., Haugh, J. M., & Mattos, C. (2010, November 23). Journal of Biological Chemistry, Vol. 286, pp. 3323–3331.

By: G. Buhrman n, V. Kumar, M. Cirit n, J. Haugh n  & C. Mattos*

MeSH headings : Allosteric Regulation; Allosteric Site; Animals; Guanosine Triphosphate / metabolism; Kinetics; Mice; Mutation, Missense; NIH 3T3 Cells; Protein Conformation; Protein Stability; Signal Transduction; raf Kinases / metabolism; ras Proteins / genetics; ras Proteins / metabolism
topics (OpenAlex): Protein Kinase Regulation and GTPase Signaling; Cell death mechanisms and regulation; Enzyme Structure and Function
TL;DR: The allosteric switch is linked to the control of signaling in the Ras/Raf/MEK/ERK pathway, supporting a GTPase-activating protein-independent model for duration of the Ras-Raf complex. (via Semantic Scholar)
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Sources: Web Of Science, ORCID, NC State University Libraries
Added: August 6, 2018

2010 article

Stochastic Model of Integrin-Mediated Signaling and Adhesion Dynamics at the Leading Edges of Migrating Cells

Cirit, M., Krajcovic, M., Choi, C. K., Welf, E. S., Horwitz, A. F., & Haugh, J. M. (2010, February 26). (A. R. Asthagiri, Ed.). PLoS Computational Biology, Vol. 6, p. e1000688.

By: M. Cirit n, M. Krajcovic n, C. Choi*, E. Welf n, A. Horwitz* & J. Haugh n 

Ed(s): A. Asthagiri

MeSH headings : Animals; CHO Cells; Cell Adhesion / physiology; Cell Movement / physiology; Cell Surface Extensions / metabolism; Computational Biology / methods; Computer Simulation; Cricetinae; Cricetulus; Extracellular Matrix / metabolism; Green Fluorescent Proteins / genetics; Green Fluorescent Proteins / metabolism; Integrins / metabolism; Models, Biological; Myosins / metabolism; Paxillin / genetics; Paxillin / metabolism; Signal Transduction / physiology; Stochastic Processes; rac GTP-Binding Proteins / metabolism
topics (OpenAlex): Cellular Mechanics and Interactions; Cell Adhesion Molecules Research; 3D Printing in Biomedical Research
TL;DR: This work has formulated a quantitative model of leading edge dynamics combining mechanistic and phenomenological elements and studied its features through classical bifurcation analysis and stochastic simulation, showing that the qualitative behavior of the model is most sensitive to parameters characterizing the influence of stable adhesion and myosin. (via Semantic Scholar)
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10. Reduced Inequalities (OpenAlex)
Sources: Web Of Science, ORCID, NC State University Libraries
Added: August 6, 2018

2010 article

Systematic Quantification of Negative Feedback Mechanisms in the Extracellular Signal-regulated Kinase (ERK) Signaling Network

Cirit, M., Wang, C.-C., & Haugh, J. M. (2010, September 17). Journal of Biological Chemistry, Vol. 285, pp. 36736–36744.

By: M. Cirit n, C. Wang n & J. Haugh n 

MeSH headings : Animals; Extracellular Signal-Regulated MAP Kinases / metabolism; Feedback, Physiological; Humans; Immunoblotting; Kinetics; Mice; Mitogen-Activated Protein Kinases / metabolism; NIH 3T3 Cells; Phosphorylation; Signal Transduction; ras Proteins / metabolism
topics (OpenAlex): Melanoma and MAPK Pathways; Protein Kinase Regulation and GTPase Signaling; PI3K/AKT/mTOR signaling in cancer
TL;DR: This work takes a systematic approach to parse the magnitudes of multiple regulatory mechanisms that attenuate ERK activation through canonical (Ras- dependent) and non-canonical (PI3K-dependent) pathways and demonstrates that kinetic models of signaling networks, trained on a sufficient diversity of quantitative data, can be reasonably comprehensive, accurate, and predictive in the dynamical sense. (via Semantic Scholar)
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Sources: Web Of Science, ORCID, NC State University Libraries
Added: August 6, 2018

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