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2009

• Yan S-J, Zartman JJ, Zhang M, Scott A, Shvartsman SY and Li WX.
  Bistability coordinates activation of the EGFR and DPP pathways in Drosophila vein differentiation.
  Molecular Systems Biology 5:278 (2009).
• Muratov CB, Posta F, and Shvartsman SY.
  Autocrine signal transmission with extracellular ligand degradation.
  Physical Biology 6:016006 (2009).
• Lembong J, Yakoby N, Shvartsman SY.
  Pattern formation by dynamically interacting network motifs.
  Proc Natl Acad Sci USA (2009).
• Berezhkovskii AM, Coppey M, and Shvartsman SY.
  Signaling gradients in cascades of two-state reaction-diffusion systems.
  Proc Natl Acad Sci USA 106(4):1087-92 (2009).
• Shvartsman SY, Coppey M, and Berezhkovskii AM.
  MAPK signaling in equations and embryos.
  Fly 3(1):62-67 (2009).
• Zartman JJ, Kanodia JS, Yakoby N, Schafer X, Watson C, Schlichting K, Dahmann C, and Shvartsman SY.
  Expression patterns of cadherin genes in Drosophila oogenesis.
  Gene Expression Patterns 9(1):31-36 (2009).

2008

• Yakoby N, Bristow CA, Gong D, Schafer X, Lembong J, Zartman JJ, Halfon MS, Schupbach T, and Shvartsman SY.
  A combinatorial code for pattern formation in Drosophila oogenesis.
  Developmental Cell 15:1-13 (2008).
• Zartman JJ, Yakoby N, Bristow CA, Zhou X, Schlichting K, Dahmann C, and Shvartsman SY.
  Cad74A is regulated by BR and is required for robust dorsal appendage formation in Drosophila oogenesis.
  Developmental Biology 322:289-301 (2008).
• Lembong J., Yakoby N., and Shvartsman SY.
  Spatial Regulation of BMP Signaling by Patterned Receptor Expression
  Tissue Engineering 14(9):1469-1477 (2008).
• Shvartsman SY, Coppey M, and Berezhkovskii AM.
  Dynamics of maternal morphogen gradients in Drosophila.
  Current Opinion in Genetics and Development 18:1-6 (2008).
• Posta F, Shvartsman SY, and Muratov CB.
  Compensated optimal grids for elliptic boundary-value problems.
  J. Comp. Phys. 227:8622-8635 (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.