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2008

• Coppey M, Boettiger AN, Berezhkovskii AM, Shvartsman SY. Nuclear trapping shapes the terminal gradient in the Drosophila embryo. Curr Biol 18(12):915-9. (2008). Supplemental Data
• Berezhkovskii A.M., Coppey M., Sealfon S.C., and Shvartsman S.Y. Cell-to-cell communication: Time and length scales of ligand internalization in cultures of suspended cells. J. Chem. Phys. 128:225102 (2008).
• Muratov CB and Shvartsman SY. Boundary homogenization for periodic arrays of absorbers. Multiscale Model. Simul. 7(1):44-61 (2008).
• Yakoby N., Lembong J., Schupbach T., and Shvartsman SY. Drosophila eggshell is patterned by sequential action of feedforward and feedback loops. Development 135:343-351 (2008).

2007

• Zartman JJ and Shvartsman SY. Enhancer Organization: Transistor with a Twist or Something in a Different Vein? Current Biology Vol 17 No 24:R1048 (2007).
• Coppey M, Berezhkovskii AM., Kim Y., Boettiger AN., Shvartsman SY. Modeling the bicoid gradient: diffusion and nuclear trapping of a stable protein. Developmental Biology 312(2):623-30 (2007).
• Coppey M, Berezhkovskii AM, Sealfon SC, Shvartsman SY. Time and length scales of autocrine signals in three dimensions. Biophys J. 2007 Sep 15;93(6):1917-22.
• Qiao L, Nachbar R, Kevrekidis I, Shvartsman S. Bistability and oscillations in the Huang-Ferrell model of MAPK signaling. PLoS Computational Biology, 2007

2006

• Reeves GT, Muratov CB, Schupbach T, Shvartsman SY. Quantitative Models of Developmental Pattern Formation. Dev Cell. 11(3):289-300. 2006
• Lea A. Goentoro, Gregory T. Reeves, Craig P. Kowal, Luigi Martinelli, Trudi Schupbach, and Stanislav Y. Shvartsman. Quantifying the Gurken Morphogen Gradient in Drosophila Oogenesis, Develpmental Cell 11:263-272. 2006
• Djordje L. Nikolic, Alistair N. Boettiger, Dafna Bar-Sagi, Jeffrey D. Carbeck and Stanislav Y. Shvartsman. Role of boundary conditions in an experimental model of epithelial wound healing, Am J Physiol Cell Physiol. 291(1):C68-75. 2006
• Berezhkovskii AM, Monine MI, Muratov CB, Shvartsman SY. Homogenization of boundary conditions for surfaces with regular arrays of traps, J Chem Phys. 124(3):036103. 2006
• Goentoro LA, Yakoby N, Goodhouse J, Schupbach T, Shvartsman SY. Quantitative analysis of the GAL4/UAS system in Drosophila oogenesis. Genesis. 44(2):66-74. 2006

2005

• N. Yakoby, C.A. Bristow, I. Gouzman, M.P. Rossi, Y. Gogotsi, T. Schupbach and S.Y. Shvartsman. Systems-level questions in Drosophila oogenesis, IEE Proc.-Sys. Biol. 15:276-284. 2005
• Gregory T. Reeves, Rachel Kalifa, Daryl E. Klein, Mark A. Lemmon and Stanislav Y. Shvartsman. Computational analysis of EGFR inhibition by Argos. Developmental Biology, 284: 523-535, 2005
• Stanislav Y. Shvartsman , Quantitative Analysis of Developing Tissues AIChE Journal. Volume 51, Issue 5 , Pages 1312 - 1318
• M.Monine, A. M. Berezhkovskii , E.J. Joslin , H.Wiley , D.A. Lauffenburger and S.Y.Shvartsman. Ligand Accumulation in Autocrine Cell Cultures. Biophysical Journal Vol. 88, pp. 2384-2390, 2005.

2004

• Shvartsman SY, A.M. Berezhkovskii, Y.M. Makhnovskii, M. Monine, and V.Y. Zitserman, Boundary homogenization for trapping by patchy surfaces, J Chem Phys, Vol 121(22), 2004.
• Shvartsman SY, Wiley HS, Lauffenburger DA, Epidermal growth factor receptor signaling in tissues. IEEE CONTROL SYSTEMS MAGAZINE 24 (4): 53-61 AUG 2004.
• Muratov CB, Shvartsman SY, Signal propagation and failure in discrete autocrine relays. Phys Rev Lett. 2004 Sep 10;93(11):118101. Epub 2004 Sep 10.
• Klein DE, Nappi VM, Reeves GT, Shvartsman SY, Lemmon MA. Argos inhibits epidermal growth factor receptor signalling by ligand sequestration. Nature. 2004 Aug 26;430(7003):1040-4.
• Berezhkovskii AM, Batsilas L, Shvartsman SY, Ligand Trapping in epithelial layers and cell cultures, Biophysical Chemistry, 2004,107(3), 221-227

2003

• Berezhkovskii AM, Zitserman VYu, Shvartsman SY, Effective diffusivity in periodic porous materials, J. Chem. Phys., 2003, 119(14), 6991-6993
• Berezhkovskii AM, Zitserman VYu, Shvartsman SY, Diffusivity in periodic arrays of spherical cavities, J. Chem. Phys., 2003, 118(15), 7146-7147
• Muratov CB, Shvartsman SY. An asymptotic study of the inductive pattern formation mechanism in Drosophila egg development, Physica D, Nonlinear Phenomena 186(1-2) (2003) 93-108
• Batsilas L, Berezhkovskii AM, Shvartsman SY, Stochastic model for autocrine and paracrine signals in cell culture assays, Biophys J., 2003, 85: 3659-3665
• Pribyl M, Muratov CB, Shvartsman SY. Discrete models of autocrine cell communication in epithelial layers. Biophys J., 2003, 84: 3624-3635
• Pribyl M, Muratov CB, Shvartsman SY. Long-range signal transmission in autocrine relays. Biophys J., 2003, 84: 883-896
• Wiley HS, Shvartsman SY, Lauffenburger DA. Computational modeling of the EGF receptor system: a paradigm for systems biology. Trends Cell Biol, 2003 13(1), 43-50.
• Pribyl M, Muratov CB, Shvartsman SY. Transitions in the model of epithelial patterning. Dev Dyn., 2003, 226(1):155-9.

2002

• Shvartsman SY, Hagan MP, Yacoub A, Dent P, Wiley HS, Lauffenburger DA. Autocrine loops with positive feedback enable context-dependent cell signaling. Am J Physiol Cell Physiol., 2002, 282:C545-C559.
• Shvartsman SY, Shooting from the hip, PNAS, 2002, 99(14), 9087-9089.
• Shvartsman SY, Muratov CB, Lauffenburger DA. Modeling and computational analysis of EGF receptor-mediated cell communication in Drosophila oogenesis. Development 2002,129(11):2577-2589.

2001

• Shvartsman SY, Wiley HS, Deen WM, Lauffenburger DA. Spatial range of autocrine signaling: modeling and computational analysis. Biophys J., 2001, 81(4):1854-67.