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Stanislav Shvartsman

Selected Publications

1.  "How long does it take to establish a morphogen gradient."  Biophysical Journal. 99, pp. 59-61 (2010) [with Alexander Berezhkovskii, Christine Sample].

2.  "Beta-arrestin Kurtz inhibits MAPK and Toll signalling in Drosophila development."  The EMBO Journal. 29, pp. 3222-3235 (2010) [with Marla Tipping, Yoosik Kim, Phillip Kyriakakis, Mei Tong, and Alexey Veraksa].

3.  "A compartmental model for the bicoid gradient."  Developmental Biology 345:12-17 (2010) [with Kavousanakis ME, Kanodia JS, Kim,Kevrekidis IG].

4.  "Waves of Autocrine Signaling in Patterned Epithelia."  Math. Model. Nat. Phenom. Vol 5, No. 5, 2010, pp. 46-63 [with C.B.Muratov].

5.  "A compartmental model for the bicoid gradient."  Developmental Biology 345:12-17 (2010) [with Kavousanakis ME, Kanodia JS, Kim,Kevrekidis IG].

6.  "Multiscale modeling of diffusion in the early Drosophila embryo."  Proc Natl Acad Sci USA 107(22):10092-6 (2010) [with Sample C].

7.  "Unit Operations of Tissue Development: Epithelial Folding."  Annual Review of Chemical and Biomolecular Engineering 1:231-46 (2010) [with Zartman JJ].

8.  "MAPK Substrate Competition Integrates Patterning Signals in the Drosophila Embryo."  Current Biology 20(5):1-6 (2010) [with Kim Y, Coppey M, Grossman R, Ajuria L, Jimenez G, Paroush Z,].

9.  "Dynamics of the Dorsal morphogen gradient."  Proc Natl Acad Sci USA 106(4):1087-92 (2009) [Kanodia JS, Rikhy R, Kim Y, Lund VK, DeLotto R, Lippincott-Schwartz J].

10. "Feedback control of the EGFR signaling gradient: superposition of domain-splitting events in Drosophilaoogenesis." Development 136:2903 (2009) [with Zartman JJ, Kanodia JS, Cheung LS].

11. "Bistability coordinates activation of the EGFR and DPP pathways in Drosophila vein differentiation."
Molecular Systems Biology 5:278 (2009) [with Yan S-J, Zartman JJ, Zhang M, Scott A, and Li WX].

12. "Autocrine signal transmission with extracellular ligand degradation."  Physical Biology 6:016006 (2009) [with Muratov CB, Posta F].

13."Pattern formation by dynamically interacting network motifs."  Proc Natl Acad Sci USA 106(9):3213-3218 (2009) [with Lembong J, Yakoby N].

14. "Signaling gradients in cascades of two-state reaction-diffusion systems."  Proc Natl Acad Sci USA 106(4):1087-92 (2009) [with Berezhkovskii AM, Coppey M].

15. "MAPK signaling in equations and embryos."  Fly 3(1):62-67 (2009) [with Coppey M, and Berezhkovskii AM].

16. "Expression patterns of cadherin genes in Drosophila oogenesis."  Gene Expression Patterns 9(1):31-36 (2009) [with Zartman JJ, Kanodia JS, Yakoby N, Schafer X, Watson C, Schlichting K, Dahmann C,].

17. "A combinatorial code for pattern formation in Drosophila oogenesis."  Developmental Cell 15:1-13 (2008) [with Yakoby N, Bristow CA, Gong D, Schafer X, Lembong J, Zartman JJ, Halfon MS, Schupbach T].

18. "Cad74A is regulated by BR and is required for robust dorsal appendage formation in Drosophila oogenesis."  Developmental Biology 322:289-301 (2008) [with Zartman JJ, Yakoby N, Bristow CA, Zhou X, Schlichting K, Dahmann C.].

19. "Spatial Regulation of BMP Signaling by Patterned Receptor Expression"  Tissue Engineering 14(9):1469-1477 (2008) [with Lembong J., Yakoby N.].

20. "Dynamics of maternal morphogen gradients in Drosophila."  Current Opinion in Genetics and Development 18:1-6 (2008) [with Coppey M, and Berezhkovskii AM].

21. "Compensated optimal grids for elliptic boundary-value problems."  J. Comp. Phys. 227:8622-8635 (2008) [with Posta F, and Muratov CB].

22. "Nuclear trapping shapes the terminal gradient in the Drosophila embryo."  Curr Biol 18(12):915-9. (2008) [with Coppey M, Boettiger AN, Berezhkovskii AM].

23. "Cell-to-cell communication: Time and length scales of ligand internalization in cultures of suspended cells."  J. Chem. Phys. 128:225102 (2008) [with Berezhkovskii A.M., Coppey M., Sealfon S.C.].

24. "Boundary homogenization for periodic arrays of absorbers."  Multiscale Model. Simul. 7(1):44-61 (2008) [with Muratov CB].

25. "Drosophila eggshell is patterned by sequential action of feedforward and feedback loops."  Development 135:343-351 (2008) [with Yakoby N., Lembong J., Schupbach T.].

26. "Enhancer Organization: Transistor with a Twist or Something in a Different Vein?"  Current Biology Vol 17 No 24:R1048 (2007) [with Zartman JJ].

27. "Modeling the bicoid gradient: diffusion and nuclear trapping of a stable protein."  Developmental Biology 312(2):623-30 (2007) [with Coppey M, Berezhkovskii AM., Kim Y., Boettiger AN].

28. "Time and length scales of autocrine signals in three dimensions."  Biophys J. (2007) Sep 15;93(6):1917-22.  [with Coppey M, Berezhkovskii AM, Sealfon SC].

29. "Bistability and oscillations in the Huang-Ferrell model of MAPK signaling."  PLoS Computational Biology, (2007) [with Qiao L, Nachbar R, Kevrekidis I].

30. "Quantitative Models of Developmental Pattern Formation."  Dev Cell. 11(3):289-300. (2006) [Reeves GT, Muratov CB, Schupbach T].

31. "Quantifying the Gurken Morphogen Gradient in Drosophila Oogenesis,"  Developmental Cell 11:263-272. (2006) [with Lea A. Goentoro, Gregory T. Reeves, Craig P. Kowal, Luigi Martinelli, Trudi Schupbach].

32. "Role of boundary conditions in an experimental model of epithelial wound healing,"  Am J Physiol Cell Physiol. 291(1):C68-75. (2006) [with Djordje L. Nikolic, Alistair N. Boettiger, Dafna Bar-Sagi, Jeffrey D. Carbeck].

33. "Homogenization of boundary conditions for surfaces with regular arrays of traps,"  J Chem Phys. 124(3):036103. (2006) [with Berezhkovskii AM, Monine MI, Muratov CB].

34. "Quantitative analysis of the GAL4/UAS system in Drosophila oogenesis."  Genesis. 44(2):66-74. (2006) [with Goentoro LA, Yakoby N, Goodhouse J, Schupbach T].

35. "Systems-level questions in Drosophila oogenesis,"  IEE Proc.-Sys. Biol. 15:276-284. (2005) [with N. Yakoby, C.A. Bristow, I. Gouzman, M.P. Rossi, Y. Gogotsi, T. Schupbach].

36. "Computational analysis of EGFR inhibition by Argos."  Developmental Biology, 284: 523-535, (2005) [withGregory T. Reeves, Rachel Kalifa, Daryl E. Klein, Mark A. Lemmon].

37. "Quantitative Analysis of Developing Tissues"  AIChE Journal. Volume 51, Issue 5 , Pages 1312-1318 (2005).

38. "Ligand Accumulation in Autocrine Cell Cultures." Biophysical Journal Vol. 88, pp. 2384-2390, (2005) [with M.Monine, A. M. Berezhkovskii , E.J. Joslin , H.Wiley , D.A. Lauffenburger]

39. “Ligand Trapping in Epithelial Layers and Cell Cultures.” Biophys. Chem., 107, 221, (2004) [with A.M. Berezhkovskii and L. Batsilas].

40. “Epidermal Growth Factor Receptor Signaling in Tissues.” IEE E Control Systems Magazine, 24, 53, (2004) [with H.S. Wiley and D.A. Lauffenburger].

41. “Signal Propagation and Failure in Discrete Autocrine Relays.” Phys. Rev. Lett., 93, (2004) [with C.B. Muratov].

42. “Spatiotemporal Patterns of Mapk Activation in Migrating Epithelial Sheets.” Molec. Bio. Cell, 15, 105A, (2004) [with D.L. Nikolic, A.N. Boettiger, and J.D. Carbeck].

43. “Argos Inhibits Epidermal Growth Factor Receptor Signalling by Ligand Sequestration.” Nature, 430, 1040, (2004) [with D.E. Klein, V.M. Nappi, G.T. Reeves, and M.A. Lemmon].

44. “Boundary Homogenization for Trapping by Patchy Surfaces.” J. Chem. Phys., 121, 11390, (2004) [with A.M. Berezhkovskii, Y.M. Makhnovskii, M.M. Monine, and V.Y. Zitserman].

45. “Stochastic Model of Autocrine and Paracrine Signals in Cell Culture Assays.” Biophys. J., 85, 3659, (2003) [with L. Batsilas and A.M. Berezhkovskii].

46. “Diffusivity in Periodic Arrays of Spherical Cavities.” J. Chem. Phys., 118, 7146, (2003) [with A.M. Berezhkovskii and V.Y. Zitserman].

47. “Effective Diffusivity in Periodic Porous Materials.” J. Chem. Phys., 119, 6991, (2003) [with A.M. Berezhkovskii and V.Y. Zitserman].

48. “Equilibration in Two Chambers Connected by a Capillary.” J. Chem. Phys., 119, 12473, (2003) [with L. Dagdug, A.M. Berezhkovskii, and G.H. Weiss].

49. “An Asymptotic Study of the Inductive Pattern Formation Mechanism in Drosophila Egg Development.” Physica D, 186, 93, (2003) [with C.B. Muratov].

50. “Long-range Signal Transmission in Autocrine Relays.” Biophys. J., 84, 883, (2003) [with M. Pribyl and C.B. Muratov].

51. “Transitions in the Model of Epithelial Patterning.” Devl. Dyn., 226, 155, (2003) [with M. Pribyl and C.B. Muratov].

52. “Discrete Models of Autocrine Signaling in Epithelial Layers.” Biophys. J., 84, 3624, (2003) [with M. Pribyl and C.B. Muratov].

53. “Computational Modeling of the EGF-Receptor System: A Paradigm for Systems Biology." Trends Cell. Biol., 13, 43, (2003) [with H.S. Wiley and D.A. Lauffenburger].

54. “Modeling and Computational Analysis of EGF Receptor-Mediated Cell Communication in Drosophila Oogenesis.” Development, 129, 2577, (2002) [with C.B. Muratov and D.A. Lauffenburger].

55. “Autocrine Loops with Positive Feedback Enable Context-Dependent Cell Signaling.” Am. J. Physiol. Cell Physiol., 282, C545, (2002) [with A. Yacoub, M.P. Hagan, P. Dent, H.S. Wiley, and D.A. Lauffenburger].

56. “Shooting From the Hip: Spatial Control of Signal Release by Intracellular Waves.” Proc. Natl. Acad. Sci. USA, 99, 9087, (2002).

57. “Why Model?” Trends in Genetics, 17, 479, (2001).

58. “Spatial Range of Autocrine Signaling: Modeling and Computational Analysis.” Biophys, J., 81, 341, (2001) [with H.S. Wiley, W.M. Deen, and D.A. Lauffenburger].

59. “Critical Effects in NO Reduction on Microcomposite Pt/Rh Catalysts: Experiments and Computer-Assisted Analysis.” Catal. Today, 70, 301, (2001) [with I.G. Kevrekidis, E. Schuetz, and R. Imbihl].

60. “Order Reduction for Nonlinear Dynamic Models of Distributed Reacting Systems.” J. Process Control, 10, 177, (2000) [with S. Shvartsman, C. Theodoropoulos, R. Rico-Martinez, E.S. Titi, and T.J. Mountziaris].