publication

Using Markov state models to develop a mechanistic understanding of protein kinase A regulatory subunit RIalpha activation in response to cAMP binding
Boras, B. W., Kornev, A., Taylor, S. S., McCulloch, A. D.
J Biol Chem. 2014 Sep 8. pii: jbc.M114.568907
PUBMED:25202018      doi:10.1074/jbc.M114.568907
   VCell BioModels referenced in publication:
   user: bboras,   model name: Boras_PKA-Dimer
   user: bboras,   model name: Boras_PKA-CBD-A
   user: bboras,   model name: Boras_PKA-Unconstrained
   user: bboras,   model name: Boras_PKA_Dimer_mutant_B-inhibited
   user: bboras,   model name: Boras_PKA_CBD-A_mutant_B-inhibited
   user: bboras,   model name: Boras_PKA-CBD-A
   user: […]

There is more than one way to model an elephant. Experiment-driven modeling of the actin cytoskeleton
Ditlev, J. A., Mayer, B. J., Loew, L. M.
Biophys J. 2013;104(3):520-32.
PUBMED:23442903      doi:10.1016/j.bpj.2012.12.044

ERK regulation of phosphodiesterase 4 enhances dopamine-stimulated AMPA receptor membrane insertion
Song, R. S., Massenburg, B., Wenderski, W., Jayaraman, V., Thompson, L., Neves, S. R.
Proc Natl Acad Sci U S A. 2013 Sep 17;110(38):15437-42. doi: 10.1073/pnas.1311783110. Epub 2013 Aug 28.
PUBMED:23986500      doi:10.1073/pnas.1311783110
   VCell BioModels referenced in publication:
   user: rsong,   model name: Song_PNAS_2013

Visualizing chemical structure-subcellular localization relationships using fluorescent small molecules as probes of cellular transport
Rosania, G. R., Shedden, K., Zheng, N., Zhang, X.
J Cheminform. 2013;5(1):44.
PUBMED:24093553      doi:10.1186/1758-2946-5-44

Guardians of the actin monomer
Xue, Bo, Robinson, Robert C.
Eur J Cell Biol. 2013;92(10-11):316-32.
PUBMED:24268205      doi:10.1016/j.ejcb.2013.10.012

Ion channels and regulation of insulin secretion in human beta-cells: a computational systems analysis
Fridlyand, L. E., Jacobson, D. A., Philipson, L. H.
Islets. 2013;5(1):1-15.
PUBMED:23624892      doi:10.4161/isl.24166
VCell MathModels referenced in publication:
user: Fridlyand,   model name: Humans_Beta_cell

Modeling and Simulation of Intracellular Drug Transport and Disposition Pathways with Virtual Cell
Baik, J., Rosania, G. R.
2013;1(1): 8., J Pharmaceu Pharmacol, June 2013 Vol.:1, Issue:1
PUBMED:24364041      
VCell BioModels referenced in publication:
user: jsbaik,   model name: Baik & Rosania 2013 JPP – 01 Suspension model no lysosome
user: jsbaik,   model name: Baik & Rosania 2013 JPP – 02 Transcellular model no lysosome
user: jsbaik,   model name: Baik & Rosania 2013 JPP – 03 Transcellular model with lysosome […]

Mutations in DNA binding and transactivation domains affect the dynamics of parvovirus NS1 protein
Niskanen, E. A., Kalliolinna, O., Ihalainen, T. O., Hakkinen, M., Vihinen-Ranta, M.
J Virol. 2013;87(21):11762-74.
PUBMED:23986577      doi:10.1128/JVI.01678-13

Protein equilibration through somatic ring canals in Drosophila
McLean, P. F., Cooley, L.
Science. 2013 Jun 21;340(6139):1445-1447. Epub 2013 May 23.
PUBMED:23704373      doi:10.1126/science.1234887
   VCell BioModels referenced in publication:
   user: peterfoster,   model name: PAGFP Diffusion COMPARTMENTAL_4Cell_01
   user: peterfoster,   model name: PAGFP Diffusion COMPARTMENTAL_3Cell_02
   user: peterfoster,   model name: PAGFP Diffusion COMPARTMENTAL_3Cell_01
   user: peterfoster,   model name: 2 Cell Spatial CORR 1/4Cell_01

Quantitative properties and receptor reserve of the DAG and PKC branch of G(q)-coupled receptor signaling
Falkenburger, B. H., Dickson, E. J., Hille, B.
J. Gen. Physiol. 2013; 141:537-555
PUBMED:23630338      doi:10.1085/jgp.201210887
   VCell BioModels referenced in publication:
   user: bfalken,   model name: FalkenburgerDicksonHille2013