2000-

1. Glading, A., P. Chang, D.A. Lauffenburger, and A. Wells, “EGF Receptor Activation of Calpain is Required for Fibroblast Motility and Occurs via an ERK/MAPK Signaling Pathway”, J. Biol. Chem. 275: 2390-2398 (2000).
2. Schaffer, D.V., N. Fidelman, N. Dan, and D.A. Lauffenburger, “ Vector Unpackaging is a Limiting Barrier to Molecular Conjugate Gene Delivery and Expression”, Biotech. Bioeng. 67: 598-606 (2000).
3. Fallon, E.M., S.F. Liparoto, K.J. Lee, T.L. Ciardelli, and D.A. Lauffenburger, “Increased Endosomal Sorting of Ligand to Recycling Enhances Potency of an Interleukin-2 Analog”, J. Biol. Chem. 275: 6790-6797 (2000).
4. Maheshwari, G., G. Brown, D.A. Lauffenburger, A. Wells, and L.G. Griffith, “Cell Adhesion and Motility Depend on Nanoscale RGD Clustering”, J. Cell. Sci. 113: 1677-1686 (2000).
5. Zandstra, P.W., H.-V. Lee, G. Daley, L.G. Griffith, and D.A. Lauffenburger, “Leukemia Inhibitor Factor (LIF) Modulates Embryonic Stem Cell Self-Renewal and Differentiation Independently of Proliferation”, Biotech. Bioeng. 69: 607-617 (2000).
6. Haugh, J.M., A. Wells, and D.A. Lauffenburger, “Mathematical Modeling of Epidermal Growth Factor Signaling through the Phospholipase C Pathway: Mechanistic Insights and Predictions for Molecular Interventions”, Biotech. Bioeng. 70: 225-238 (2000).
7. Fallon, E.M. and D.A. Lauffenburger, “Computational Model for the Effects of Ligand/Receptor Binding Properties on Interleukin-2 Trafficking Dynamics and T-Cell Proliferation Response”, Biotech. Progr. 16: 905-916 (2000).
8. Asthagiri, A.R., C.A. Reinhart, A.F. Horwitz, and D.A. Lauffenburger, “The Role of Transient ERK2 Signals in Fibronectin- and Insulin-Mediated DNA Synthesis”, J. Cell Sci. 113: 4499-4510 (2000).
9. Caplan, M.R., P.N. Moore, S. Zhang, R.D. Kamm, D.A. Lauffenburger, "Self-Assembly of a b -sheet Protein is Governed by Relief of Electrostatic Repulsion Relative to van der Waals Attraction", Biomacromolecules 1: 627-631 (2000).
10. Asthagiri, A.R. and D.A. Lauffenburger, “A Computational Study of Feedback Effects on Signal Propagation in a Mitogen-Activated Protein Kinase (MAPK) Pathway Model”, Biotech. Progr. 17: 227-239 (2001).
11. Glading, A., F. Ueberall, S.M. Keyse, D.A. Lauffenburger, and A. Wells, “Membrane-Proximal ERK Signaling is Required for M-calpain Activation Downstream of EGF Receptor Signaling”, J. Biol. Chem. 276: 23341-23348 (2001).
12. Dewitt, A., J.Y. Dong, H.S. Wiley, and D.A. Lauffenburger, “Quantitative Analysis of the EGF Receptor Autocrine System Reveals Cryptic Regulation of Cell Response by Ligand Capture”, J. Cell Sci. 114: 2301-2313 (2001).
13. Narang, A., K.K. Subramanian, and D.A. Lauffenburger, “Mathematical Model for Chemoattractant Gradient Sensing Based on Receptor-Regulated Membrane Phospolipid Signaling Dynamics”, Ann. Biomed. Eng. 29: 677-691 (2001).
14. Shvartsman, S.Y., H.S. Wiley, W.M. Deen, and D.A. Lauffenburger, “Spatial Range of Autocrine Signaling Loops: Modeling and Computational Analysis”, Biophys. J. 81: 1854-1867 (2001).
15. Hong, K., J. Sherley, and D.A. Lauffenburger, “Methylation of Episomal Plasmids as a Barrier to Transient Gene Expression via a Synthetic Delivery Vector”, Biomolec. Eng. 18: 185-192 (2001).
16. Varga, C.M., K. Hong, and D.A. Lauffenburger, “Quantitative Analysis of Synthetic Gene Delivery Vector Design Properties”, Molec. Ther. 4: 438-446 (2001).
17. Maheshwari, G., H.S. Wiley, and D.A. Lauffenburger, “Autocrine Epidermal Growth Factor Stimulates Directionally-Persistent Mammary Epithelial Cell Migration’, J. Cell Biol. 155: 1123-1128 (2001).
18. Caplan, M.R., E.M. Schwartzfarb, S. Zhang, R.D. Kamm, and D.A. Lauffenburger, “Control of Self-Assembling Oligopeptide Matrix Formation through Systematic Variation of Amino Acid Sequence”, Biomaterials 23: 219-227 (2002).
19. Shvartsman, S.V., P. Dent, H.S. Wiley, and D.A. Lauffenburger, “Context-Dependent Signaling in Autocrine Loops with Positive Feedback: Modeling and Experiments in the EGFR System”, Am. J. Physiol. – Cell Physiol. 282: C545-C559 (2002).
20. Viswanathan, S., T. Benatar, S. Rose-John, D.A. Lauffenburger, and P.W. Zandstra, “Ligand/Receptor Signaling Threshold Model Accounts for gp130-Mediated Embryonic Stem Cell Self-Renewal Responses to LIF and HIL6”, Stem Cells 20: 119-138 (2002).
21. Koo, L.Y., D.J. Irvine, A.M. Mayes, D.A. Lauffenburger, and L.G. Griffith, “Co-Regulation of Cell Adhesion by Nanoscale RGD Organization and Mechanical Stimulus”, J. Cell Sci. 115: 1423-1433 (2002).
22. Marini, D.M., W. Hwang, D.A. Lauffenburger, S. Zhang, and R.D. Kamm, “Left-handed Helical Ribbon Intermediates in the Self-Assembly of a b -sheet Peptide”, Nanoletters 2: 295-299 (2002).
23. Allen, F.D., C.F. Asnes, P. Chang, E.L. Elson, D.A. Lauffenburger, and A. Wells, “EGF Induces Acute Matrix Contraction and Subsequent Calpain-Modulated Relaxation”, Wound Rep. Regen. 10: 67-76 (2002).
24. Shvartsman, S.Y., C.B. Muratov, and D.A. Lauffenburger, “Modeling and Computational Analysis of EGF Receptor-Mediated Cell Communication in Drosophila Oogenesis”, Development 129: 2577-2589 (2002).
25. Caplan, M.R., E.M. Schwartzfarb, S. Zhang, R.D. Kamm, and D.A. Lauffenburger, “Effects of Systematic Variation of Amino Acid Sequence on the Mechanical Properties of a Self-Assembling Oligopeptide Biomaterial”, J. Biomat. Sci. Polymer Ed. 13: 225-236 (2002).
26. Sarkar, C.A., K. Lowenhaupt, T. Horan, T.C. Boone, B. Tidor, and D.A. Lauffenburger, “Rational Cytokine Design for Increased Lifetime and Enhanced Potency Using pH-Activated ‘Histidine Switching’”, Nature Biotech. 20: 908-913 (2002).
27. Dewitt, A., T. Iida, H.-Y. Lam, V. Hill, H.S. Wiley, and D.A. Lauffenburger, “Affinity Regulates Spatial Range of EGF Receptor Autocrine Ligands”, Develop. Biol. 250: 305-316 (2002).
28. Sarkar, C.A. and D.A. Lauffenburger, “Cell-Level Pharmacokinetic Model of GCSF: Implications for Ligand Lifetime and Potency in Vivo”, Molec. Pharmacol. 63: 147-158 (2003).
29. Hendriks, B., L.K. Opresko, H.S. Wiley, and D.A. Lauffenburger, “Co-Regulation of EGFR/HER2 Levels and Locations: Quantitative Analysis of HER2 Overexpression Effects”, Cancer Res. 63: 1130-1137 (2003).
30. Ricci, M.S., C.A. Sarkar, E.M. Fallon, D.A. Lauffenburger, and D.N. Brems, “pH Dependence of Structural Stability of IL-2 and GCSF”, Protein Sci. 12: 1030-1038 (2003).
31. Sarkar, C.A., Lowenhaupt, K., Wang, P.J., Horan, T., and D.A. Lauffenburger, “Parsing the Effects of Binding, Signaling, and Trafficking on the Mitogenic Potency of GCSF Analogs”, Biotech. Progr. 19: 955-964 (2003).
32. Hendriks, B., L.K. Opresko, H.S. Wiley, and D.A. Lauffenburger, “Quantitative Analysis of HER2-Mediated Effects on HER2 and EGFR Endocytosis: Distribution of Homo- and Hetero-dimers Depends on Relative HER2 Levels”, J. Biol. Chem. 278: 23343-23351 (2003).
33. Cheng, C., D.A. Lauffenburger, and T. Morales, “Motile Chondrocytes: Migration Properties and Synthesis of Collagen II”, Osteoarthr. Cart. 11: 603-612 (2003).
34. Mamoune, A., J.-H. Luo, D.A. Lauffenburger, and A. Wells, “Calpain-2 as a Target for Limiting Prostate Cancer Invasion”, Cancer Res. 63: 4632-4640 (2003).
35. Janes, K.A., J.G. Albeck, L.X. Peng, P.K. Sorger, D.A. Lauffenburger, and M.B. Yaffe, “High-Throughput Multiplex Kinase Assay for Monitoring Information Flow in Signaling Networks: Application to Sepsis-Apoptosis”, Molec. Cell. Proteomics 2: 463-473 (2003).
36. Hendriks, B., H.S. Wiley, and D.A. Lauffenburger, “HER2-Mediated Effects on EGFR Endosomal Sorting: Analysis of Biophyical Mechanisms”, Biophys. J. 85: 2732-2745 (2003).
37. Viswanathan, S., T. Benatar, M. Mileikovsky, D.A. Lauffenburger, A. Nagy, and P.W. Zandstra, “Supplementation-Dependent Differences in the Rates of Embryonic Stem Cell Self-Renewal, Differentiation, and Apoptosis”, Biotech. Bioeng. 84: 505-517 (2003).
38. Rao, B.J., A.T. Girvin, T. Ciardelli, D.A. Lauffenburger, and K.D. Wittrup, “Interleukin-2 Mutants with Enhanced a -Receptor Subunit Binding Affinity”, Protein Eng. 16: 1081-10877 (2003).
39. Maly, I., H.S. Wiley, and D.A. Lauffenburger, “Self-Organization of Polarized Cell Signaling via Autocrine EGFR Circuits: Computational Model Analysis”, Biophys. J. 86: 10-22 (2004).
40. Prudhomme, W., K. Duggar, G.Q. Daly, P.W. Zandstra, and D.A. Lauffenburger, “Multi-Variate Proteomic Analysis of Murine Embryonic Stem Cell Self-Renewal vs Differentiation Behavior”, Proc. Natl. Acad. Sci. USA 101: 2900-2905 (2004).
41. Iwabu, A., K. Smith, F.D. Allen, D.A. Lauffenburger, and A. Wells, “EGF Induces Fibroblast Contractility and Motility via a PKC d -Dependent Pathway”, J. Biol. Chem. 279: 14551-14560 (2004).
42. Tschumperlin, D.J., G. Dai, I.V. Maly, L.H. Laiho, A.K. McVittie, P.T. So, D.A. Lauffenburger, R.D. Kamm, and J.M. Drazen, “Mechanotransduction via Growth Factor Shedding into a Compliant Extracellular Space”, Nature 429: 83-86 (2004).
43. Janes, K.A., J. R. Kelly, S. Gaudet, J.G.Albeck, P.K. Sorger, and D.A. Lauffenburger, “Cue-Signal-Response Analysis of TNF-Induced Apoptosis by Partial Least Squares Regression of Dynamic Multi-Variate Signaling Network Measurements”, J. Comp. Biol. 11: 544-561 (2004).
44. Lu, H., L.Y. Koo, D.A. Lauffenburger, L.G. Griffith, and K.F. Jensen, “Microfluidic Shear Devices for Quantitative Analysis of Cell Adhesion”, Analyt. Chem. 76: 5257-5264 (2004).
45. Rao, B.M., I. Driver, D.A. Lauffenburger, and K.D. Wittrup, “IL-2 Variants Engineered for Increased IL-2Ra Affinity Exhibit Increased Potency Arising from a Cell Surface Ligand Reservoir Effect”, Molec. Pharmacol. 66: 864-869 (2004).
46. Maly, I., R.T. Lee, and D.A. Lauffenburger, “A Model for Mechanotransduction in Cardiac Muscle: Effects of Extracellular Matrix Deformation on Autocrine Signaling”, Ann. Biomed. Eng. 32: 1319-1335 (2004).
47. Prudhomme, W., K.H. Duggar, and D.A. Lauffenburger, “Kinetic Model for Deconvolution of Murine Embryonic Stem Cell Self-Renewal and Differentiation Responses to Cytokines and Extracellular Matrix”, Biotech. Bioeng. 88: 264-272 (2004).
48. Lazar, C.S., C.M. Cresson, D.A. Lauffenburger, and G.N. Gill, “The Na+/H+ Exchanger Regulatory Factor Stabilizes EGFR at the Cell Surface”, Molec. Biol. Cell 15: 5470-5480 (2004).
49. Said, M.R., T.J. Begley, A.V. Oppenheim, D.A. Lauffenburger, and L.D. Samson, “Global Network Analysis of Phenotypic Effects: Protein Networks and Toxicity Modulation in S. cerevisiae”, Proc. Natl. Acad. Sci. USA 101: 18006-18011 (2004).
50. Hendriks, B.S., G. Orr, A. Wells, H.S. Wiley, and D.A. Lauffenburger, “Parsing ERK Activation Reveals Quantitatively Equivalent Contributions from EGFR and HER2 in Human Mammary Epithelial Cells”, J. Biol. Chem. 280: 6157-6169 (2005).
51. Harms, B.D, G.M. Bassi, A.R. Horwitz, and D.A. Lauffenburger, “Directional Persistence of EGF-induced Cell Migration is Associated with Stabilization of Lamellipodal Protrusions”, Biophys. J. 88: 1479-1488 (2005).
52. Woolf, P.J., W. Prudhomme, L. Daheron, G.Q. Daley, and D.A. Lauffenburger, “Bayesian Analysis of Signaling Networks Governing Embryonic Stem Cell Fate Decisions”, Bioinformatics 21: 741-753 (2005).
53. Shults, M.D., K.A. Janes, D.A. Lauffenburger, and B. Imperiali, “A Multiplexed Fluorescence-Based Assay for Protein Kinase Activity in Cell Lysates”, Nature Methods 2: 277-284 (2005).
54. Monine, M.I., A.M. Berezhkovskii, E.J. Joslin, H.S. Wiley, D.A. Lauffenburger, and S.Y. Shvartsman, “Ligand Accumulation in Autocrine Cell Cultures”, Biophys. J. 88: 2384-2390 (2005).
55. Sachs, K., O. Perez, D. Pe’er, D.A. Lauffenburger, and G.P. Nolan, “Causal Protein Signaling Networks Derived From Multiparameter Single-Cell Data”, Science 308: 523-529 (2005).
56. Hautaniemi, S., S. Kharait, A. Iwabu, A. Wells, and D.A. Lauffenburger, “Modeling of Signal-Response Cascades using Decision Tree Analysis”, Bioinformatics 21: 2027-2035 (2005).
57. Dong, J., L.K. Opresko, W. Chrisler, G. Orr, R.D. Quesenberry, D.A. Lauffenburger, and H.S. Wiley, “The Membrane-Anchoring Domain of EGF Receptor Ligands Dictates Their Ability to Operate in Juxtacrine Mode”, Molec. Biol. Cell 16: 2984-2998 (2005).
58. Varga, C.M. N.C. Tedford, M. Thomas, A.M. Klibanov, L.G. Griffith, and D.A. Lauffenburger, “Quantitative Comparison of Polyethylenimine Formulations and Adenoviral Vectors in terms of Intracellular Gene Delivery Processes”, Gene Therapy 12: 1023-1032 (2005).
59. Hua, F., M.G. Cornejo, M.H. Cardone, C.L. Stokes, and D.A. Lauffenburger, “Effects of Bcl-2 Levels on Fas Signaling-Induced Caspase-3 Activation: Molecular Genetic Tests of Computational Model Predictions”, J. Immunol. 175: 985-995 (2005).
60. Yoshioka, J., R.N. Prince, H. Huang, S.B. Perkins, F.U. Cruz, C. MacGillivray, D.A. Lauffenburger, and R.T. Lee, “Cardiomyocyte Hypertrophy and Degradation of Connexin-43 through Spatially Restricted Autocrine/Paracrine HB-EGF”, Proc. Natl. Acad. Sci. USA 102: 10622-10627 (2005).
61. Zaman, M.H., R.D. Kamm, P.T. Matsudaira, and D.A. Lauffenburger, “Computational Model for Cell Migration in Three-Dimensional Matrices”, Biophys. J. 89: 1389-1397 (2005).
62. Rao, B.M., Driver I., D.A. Lauffenburger, and K.D. Wittrup, “High-Affinity CD25-Binding IL-2 Mutants Potently Stimulate Persistent T-Cell Growth”, Biochem. 44: 10696-10701 (2005).
63. Zhang, Y., A. Wolf-Yadlin, D.J. Pappin, J. Rush, D.A. Lauffenburger, and F.M. White, “Time-Resolved Mass Spectrometry of Tyrosine Phosphorylation Sites in the EGF Receptor Signaling Network Reveals Dynamic Modules”, Molec. Cell. Proteomics 4: 1240-1250 (2005).
64. Gaudet, S., K.A. Janes, J.G. Albeck, E.A. Pace, D.A. Lauffenburger, and P.K. Sorger, “A Compendium of Signals and Responses Triggered by Prodeath and Prosurvival Cytokines”, Molec. Cell. Proteomics 4: 1569-1590 (2005).
65. Viswanathan, S., D. Cheng, R.C. Raghu, D.A. Lauffenburger, and P.W. Zandstra, “Clonal Evolution of Stem and Differentiated Cells can be Predicted by Integrating Cell-Instrinsic and Extrinsic Parameters”, Biotech. Appl. Biochem. 42: 119-131 (2005).
66. Kamei, D.T., B.J. Lao, M.S. Ricci, R. Deshpande, H. Xu, B. Tidor, and D.A. Lauffenburger, “Quantitative Methods for Developing Fc Mutants with Extended Half-Lives”, Biotech. Bioeng. 92: 748-760 (2005).
67. Janes, K.A., J.G. Albeck, S. Gaudet, P.K. Sorger, D.A. Lauffenburger, and M.B. Yaffe, “A Systems Model of Signaling Identifies a Molecular Basis Set for Cytokine-Induced Apoptosis”, Science 310: 1646-1653 (2005).
68. Semino, C.E., R.D. Kamm, and D.A. Lauffenburger, “Autocrine EGF Receptor Activation Mediates Endothelial Cell Migration and Vascular Morphogenesis Induced by VEGF Under Interstitial Flow”, Exptl. Cell Res. 312: 289-298 (2006).
69. Hendriks, B.S., J. Cook, J.M. Burke, J.M. Beusmans, D.A. Lauffenburger, and D. deGraaf, “Computational Modeling of ErbB Family Phosphorylation Dynamics in Response to TGF a and Heregulin Indicates Spatial Compartmentation of Phosphatase Activity”, IEE Proc. Systems Biol. 153: 22-33 (2006).
70. Janes, K.A., Gaudet, S., Albeck, J.G., Nielsen, U.B., Lauffenburger, D.A., and P.K. Sorger, “The Response of Human Epithelial Cells to TNF Involves an Inducible Autocrine Cascade”, Cell 124: 1225-1239 (2006).
71. Kharait, S., Dhir, R., Lauffenburger, D.A., and A. Wells, “Protein Kinase C- d Signaling Downstream of the EGF Receptor Mediates Migration and Invasiveness of Prostate Cancer Cells”, Biochem. Biophys. Res. Comm. 343: 848-856 (2006).
72. Smith, K.D., Wells, A., and D.A. Lauffenburger, “Multiple Signaling Pathways Mediate Compaction of Collagen Matrices by EGF-Stimulated Fibroblasts”, Exptl. Cell Res. 312: 1970-1982 (2006).
73. Zaman, M.H., Trapani, L., Siemeski, A., MacKellar, D., Gong, H., Kamm, R.D., Wells, A., Lauffenburger, D.A., and P.T. Matsudaira, “Migration of Tumor Cells in Three-Dimensional Matrices is Governed by Matrix Stiffness along with Cell-Matrix Adhesion and Proteolysis”, Proc. Natl. Acad. Sci. USA 103: 10889-10894 (2006).
74. Hua, F., Hautaniemi, S., Yokoo, R., and D.A. Lauffenburger, “Integrated Mechanistic and Data-Driven Modeling for Multivariate Analysis of Signaling Pathways”, J. Roy. Soc. Interfaces 3: 515-526 (2006).
75. Kumar, N., Zaman, M.H., Kim, H.-D., and D.A. Lauffenburger, “A High-Througput Migration Assay Reveals HER2-Mediated Cell Migration Arising from Increased Directional Persistence”, Biophys. J. 91: L32-L34 (2006).
76. Miller-Jensen, K.E., K.A. Janes, Y.-L. Wong, L.G. Griffith, and D.A. Lauffenburger, “Adenoviral Vector Saturates Akt Pro-Survival Signaling and Blocks Insulin-Mediated Rescue of TNF-Induced Apoptosis”, J. Cell Sci. 119: 3788-3798 (2006).
77. Wolf-Yadlin, A., N. Kumar, Y. Zhang, S. Hautaniemi, M.H. Zaman, H.-D. Kim, V. Grantcharova, D.A. Lauffenburger, and F.M. White, “HER2-Overexpression Effects on Cell Signaling Networks Governing Proliferation and Migration”, Molec. Systems Biol. 2: #54 (2006).
78. Hendriks, B.S., G.J. Griffith, R. Benson, D. Kenyon, M. Lazzara, J. Swinton, S. Beck, M. Hickinson, J.M. Beusmans, D.A. Lauffenburger, and D. DeGraaf, “Decreased Internalization of ErbB1 Mutants in Lung Cancer is Linked with a Mechanism Conferring Sensitivity to Gefitinib”, IEE Proc. Systems Biol. 153: 457-466 (2006).
79. Aldridge, B.B., G. Haller, P.K. Sorger, and D.A. Lauffenburger, “Direct Lyapunov Exponent Analysis Enables Parametric Study of Transient Signaling Governing Cell Behavior”, IEE Proc. Systems Biol. 153: 425-432 (2006).
80. Zaman, M.H., P.T. Matsudaira, and D.A. Lauffenburger, “Understanding Effects of Matrix Protease and Matrix Organization on Translational Speed and Directional Persistence of Three-Dimensional Cell Migration”, Ann. Biomed. Eng. 35: 91-100 (2007).
81. Kumar, N., A. Wolf-Yadlin, F.M. White, and D.A. Lauffenburger, “Modeling HER2 Effects on Cell Behavior from Mass Spectrometry Phosphotyrosine Data”, Public Library Sci. Comp. Biol. 3: e4 (2007).
82. Kumar, N., R. Affeyan, S. Sheppard, B. Harms, and D.A. Lauffenburger, “Quantitative Analysis of Akt Phosphorylation and Activity in Response to EGF and Insulin Treatment”, Biochem. Biophys. Res. Comm. 354: 14-20 (2007).
83. Kharait, S., S. Hautaniemi, S. Wu, A. Iwabut, D.A. Lauffenburger, and A. Wells, “Decision Tree Modeling Predicts Effects of Inhibiting Contractility Signaling on Cell Motility”, BMC Systems Biol. 1: 9-22 (2007).
84. Wolf-Yadlin, A., S. Hautaniemi, D.A. Lauffenburger, and F.M. White, “Multiple Reaction Monitoring for Robust Quantitative Proteomic Analysis of Cellular Signaling Networks”, Proc. Natl. Acad. Sci. USA 104: 5860-5865 (2007).
85. Kemp, M.L., L. Wille, C.L. Lewis, L.B. Nicholson, and D.A. Lauffenburger, “Quantitative Network Signal Combinations Downstream of TCR Activation Can Predict IL-2 Production Response”, J. Immunol. 178: 4984-4992 (2007).
86. Wille, L., M.L. Kemp, P. Sandy, C.L. Lewis, and D.A. Lauffenburger, “Epi-Allelic Erk1 and Erk2 Knockdown Series for Quantitative Analysis of T-Cell Erk Regulation and IL-2 Production”, Molec. Immunol. 44: 3085-3091 (2007).
87. Miller-Jensen K.E., K.A. Janes, J.S. Brugge, and D.A. Lauffenburger, “Common Effector Processing Mediates Cell-Specific Responses to Stimuli”, Nature 448: 604-608  (2007).
88. Green, J.J., G.T. Zugates, N. Tedford, Y.-H. Huang, L.G. Griffith, D.A. Lauffenburger, J.A Sawicki, R. Langer, and D.G. Anderson, “Combinatorial Modification of Degradable Polymers Enables Transfection of Human Cells Comparable to Adenovirus”, Adv. Materials 19: 2836-2842 (2007).
89. Joslin, E.J., L.K. Opresko, A. Wells, H.S. Wiley, and D.A. Lauffenburger, “EGF Receptor-Mediated Mammary Epithelial Cell Migration is Driven by Sustained ERK Signaling from Autocrine Stimulation”, J. Cell Sci. 120: 3688-3699 (2007).
90. Zugates, G., N. Tedford, A. Zumbuehl, S. Jhunjhunwala, C. Kang, L.G. Griffith, D.A. Lauffenburger, R. Langer, and D. Anderson, “Gene Delivery Properties of End-Modified Poly(beta-amino ester)s”, Bioconj. Chem. 18: 1887-1896 (2007).
91. Saez-Rodrigues J., A. Goldsipe, J. Muhlich, L.G. Alexopoulos, B. Millard, D.A. Lauffenburger, and P.K. Sorger, " Flexible Informatics for Linking Experimental Data to Mathematical Models via DataRail", Bioinformatics 24: 840-847 (2008).
92. Albeck, J.G., J.M. Burke, B.B. Aldridge, M. Zhang, D.A. Lauffenburger, and P.K. Sorger, "Quantitative Analysis of Pathways Controlling Extrinsic Apoptosis in Single Cells", Molec. Cell 30: 11-15 (2008).
93. Kumar, N., R. Afeyan, H.-D. Kim, and D.A. Lauffenburger, "Multi-Pathway Model Enables Prediction of Kinase Inhibitor Cross-Talk Effects on Migration of HER2-Overexpressing Mammary Epithelial Cells", Molec. Pharmacol. 73: 1668-1678 (2008).
94. Macdonald, A., A.R. Horwitz, and D.A. Lauffenburger, "Kinetic Model for Lamellipodal Actin-Integrin 'Clutch' Dynamics", Cell Adhesion & Migration 2: 1-11 (2008).
95. Cosgrove, B.D., C. Cheng, J.R. Pritchard, D.B. Stoltz, D.A. Lauffenburger, and L.G. Griffith, "An Inducible Autocrine Cascade Regulates Rat Hepatocyte Proliferation and Apoptosis Responses to TNF±", Hepatology 48: 276-288 (2008).
96. Hernandez-Vera, R., E. Genove, L. Alvarez, S. Borros, R. Kamm, D. Lauffenburger, and C.E. Semino, "Interstitial Fluid Flow Intensity Modulates Endothelial Sprouting in Restricted Src-Activated Cell Clusters during Capillary Morphogenesis", Tissue Eng. (accepted for publication, 2008).
97. Harley, B.A., H-D. Kim, M.H. Zaman, I.V. Yannas, D.A. Lauffenburger, and L.J. Gibson, "Micro-Architecture of Three-Dimensional Scaffolds Influences Cell Migration Behavior via Junction Interactions", Biophys. J. (accepted for publication, 2008).
98. Kim, H.-D., T.W. Guo, A.P. Wu, A. Wells, F.B. Gertler, and D.A. Lauffenburger, "EGF-Induced Enhancement of Glioblastoma Cell Migration in 3D Arises from Intrinsic Increase in Speed but Extrinsic Matrix- and Proteolysis-Dependent Increase in Persistence", Molec. Biol. Cell (accepted for publication, 2008).
99. Harley, B.A., H-D. Kim, M.H. Zaman, I.V. Yannas, D.A. Lauffenburger, and L.J. Gibson, “Micro-Architecture of Three-Dimensional Scaffolds Influences Cell Migration Behavior via Junction Interactions”, Biophys. J. 95: 4013-4024 (2008).
100. Albeck, J.G., J.M. Burke, S.L. Spencer, D.A. Lauffenburger, and P.K. Sorger, “Modeling a Snap-Action, Variable-Delay Switch Controlling Extrinsic Cell Death”, PLoS Biology 6: e299 (2008).
101. Philippar, U., E.T. Roussos, M. Oser, H. Yamaguchi, H.-D. Kim, S. Giampieri, S. Goswami, J.B. Wycoff, D.A. Lauffenburger, E. Sahai, J.S. Condeelis, and F.B. Gertler, “A Mena Invasion Isoform Potentiates EGF-Induced Carcinoma Cell Invasion and Metastasis”, Developmental Cell 15: 813-828 (2008).
102. Joughin, B.A., K.M. Naegle, P.H. Huang, M.B. Yaffe, D.A. Lauffenburger, and F.M. White, “An Integrated Comparative Phosphoproteomic and Bioinformatic Approach Reveals a Novel Class of MPM2 Motifs Upregulated in EGFRvIII-expressing Glioblastoma Cells”, Molec. Biosystems 5: 59-67 (2009).
103. Chen, W.W., B. Schoeberl, P.J. Jasper, M. Niepel, U.B. Nielsen, D.A.Lauffenburger, and P.K. Sorger, “Input-Output Behavior of ErbB Signaling Pathways as Revealed by a Mass-Action Model Trained Against Dynamic Data”, Molec. Syst. Biol. 5: 239 (2009).
104. Hernandez-Vera, R., E. Genove, L. Alvarez, S. Borros, R. Kamm, D. Lauffenburger, and C.E. Semino, “Interstitial Fluid Flow Intensity Modulates Endothelial Sprouting in Restricted Src-Activated Cell Clusters during Capillary Morphogenesis”, Tissue Eng. 15: 175-185 (2009).
105. Sachs, K., S. Itani, J. Carlisle, G.P. Nolan, D. Pe’er, and D.A. Lauffenburger, “Learning Signaling Network Structures with Sparsely Distributed Data”, J. Comp. Biol. 16: 201-212 (2009).
106. Aldridge, B.B., J. Saez-Rodriguez, J.L. Muhlich, and D.A. Lauffenburger, “Fuzzy Logic Analysis of Kinase Pathway Crosstalk in TNF/EGF/Insulin-Induced Signaling”, PLoS Comp. Biol. 5: e1 (2009).
107. Cosgrove, B.D., B.M. King, M.A. Hasan, L.G. Alexopoulos, P.A. Farazi, B.S. Hendriks, L.G. Griffith, P.K. Sorger, B. Tidor, J.J. Xu, and D.A. Lauffenburger, “Synergistic Drug-Cytokine Induction of Hepatocellular Death as an in vitro Approach for the Study of Inflammation-Associated Idiosyncratic Drug Hepatotoxicity”, Toxicol. Appl. Pharmacol. 237: 317-330 (2009).
108. Platt, M.O., A.J. Roman, A. Wells, D.A. Lauffenburger, and L.G. Griffith, “Sustained Epidermal Growth Factor Receptor Levels and Activation by Tethered Ligand Binding Enhances Osteogenic Differentiation of Multi-Potent Marrow Stromal Cells”, J. Cell. Physiol. (in press, 2009).
109. Pritchard, J.R., B.D. Cosgrove, M.T. Hemann, L.G. Griffith, J.R. Wands, and D.A. Lauffenburger, “Three-Kinase Inhibitor Combination Recreates Multi-Pathway Effects of a Geldanamycin Analog on Hepatocellular Carcinoma Cell Death”, Molec. Cancer Therapeutics (in press, 2009).