Human MAPs Center
Human Models for Analysis of Pathways (HMAPs) Center

Publications

  1. Roy S and  Sridharan R. (2017) “Chromatin module inference on cellular trajectories identifies key transition points and poised epigenetic states in diverse developmental processes”. Genome Research. In press. Internet Link icon
  2. Chasman D., Roy S (2017). Inference of cell type specific regulatory networks on mammalian lineages. Current Opinion in Systems Biology. In Press. Internet Link icon
  3. Marti-Figueroa CR., Ashton RS (2017). The case for applying tissue engineering methodologies to instruct human organoid morphogenesis. Acta Biomaterialia. In Press. Internet Link icon
  4.  D.G. Belair, N.N. Le, W.L. Murphy. (2016) Regulating VEGF signaling in platelet concentrates via specific VEGF sequestering. Biomaterials Science, 2016, 4, 819-825 Internet Link icon
  5. Morgan M. M., Johnson B. P., Livingston M. K., Schuler L. A., Alarid E. T., Sung K. E., & Beebe, D. J. (2016). Personalized in vitro cancer models to predict therapeutic response: challenges and a framework for improvement. Pharmacology & Therapeutics, 165, 79-92 Internet Link icon
  6. M.R. Zanotelli, H. Ardalani, J. Zhang, Z. Hou, E.H. Nguyen, S. Swanson, B.K. Nguyen, J. Bolin, L. Bischel, A.W. Xie, R. Stewart, D.J. Beebe, J.A. Thomson, M.P. Schwartz, W.L. Murphy. Stable engineered vascular networks from human induced pluripotent stem cell-derived endothelial cells cultured in synthetic hydrogels. Acta Biomaterialia, 2016, 35, 32-41 Internet Link icon
  7. D.G. Belair, M.P. Schwartz, T. Knudsen, W.L. Murphy. Human iPSC-derived endothelial cell sprouting assay in synthetic hydrogel arrays. Acta Biomaterialia. 2016, In Press Internet Link icon
  8. D. Chasman, K.B. Walters, T.J.S. Lopes, D. Pozorski, A.J. Eisfeld, Y. Kawaoka, S. Roy. Integrating transcriptomic and proteomic data with predictive regulatory network models of host response to pathogens. PLOS Computational Biology, 2016, 12(7): e1005013. doi:10.1371/journal.pcbi.1005013 Internet Link icon
  9. D. Chasman, A. Fotuhi Siahpirani, S. Roy. Network-based approaches for analysis of complex biological systems. Current Opinion in Biotechnology, 2016, 39, 157-166 Internet Link icon
  10. S. Roy., S. Sridharan. CMINT: Chromatin Module inference on cellular trajectories identifies poised epigenetic states in reprogramming to induced pluripotent stem cells. Submitted.
  11. D.G. Belair, M.J. Miller, S. Wang, N. Sheibani, W.L. Murphy. Differential regulation of angiogenesis using degradable VEGF-binding microspheres. Biomaterials, 2016, 93, 27-37 Internet Link icon
  12. E.S. Lippmann, M.C. Estevez-Silva, R.S. Ashton (2015). Chemically defined differentiation of human pluripotent stem cells to hindbrain and spinal cord neural stem cells with defined regional identities. Protocol Exchange. Internet Link icon
  13. Knight GT, Sha J, Ashton RS (2015). Micropatterned, clickable culture substrates enable in situ spatiotemporal control of human PSC-derived neural tissue morphology. Chemical Communications 2015;51:5238-5241. Internet Link icon
  14. A.W. Xie, B.Y.K. Binder, S.K. Schmitt, A.S. Khalil, W.L. Murphy. Controlled self-assembly of stem cell aggregates on chemically defined substrates. Submitted.
  15. J.D. McNulty, C. Marti-Figueroa, T. Ellingham, L.J.L. Huddleston, S. Goris, B.L. Cox, T.A. Osswald, L. Turng, R. Ashton. Free-form controlled fabrication of 3-D neural organoids. Submitted.
  16. E.S. Lippmann, N. Sehgal, M.C. Estevez-Silva, M.A. Bakooshli, G.T. Knight, K. Lemke, J. Plantz, P.M. Gilbert, and R.S. Ashton. Wnt/β-catenin induction of Nkx6.1 enables high yield derivation of spinal motor neurons of diverse regional identities from human pluripotent stem cells. Submitted.
  17. S.K. Schmitt, J. Krutty, P. Gopalan, W.L. Murphy. Modification of polymer substrates for defined stem cell culture. Submitted.
  18. E.H. Nguyen, W.L. Murphy. Biomaterials for modeling complex effects of anti-angiogenesis treatments in vitro. Submitted.
  19. M. Farnoodian, C. Schrieber, C. Slinger, B. Pattnaik, C.M. Sorenson, N. Sheibani. High glucose promotes the migration of retinal pigment epithelial cells through increased oxidative stress and PEDF expression. Submitted.
  20. S. Park, J. Falero-Preze, C.M. Sorenson, N. Sheibani. PEDF Expression Modulates Retinal Endothelial Cell Pro-Angiogenic Properties through Alterations in Cell Adhesive Mechanisms. In Preparation.
  21. M.M. Morgan, B.P. Johnson, K.E. Sung, L. Schuler,/E. Alarid, D.J. Beebe. Personalized in vitro models of cancer to predict therapeutic response: utilizing therapeutic outcome pathways to guide model development. In Preparation.
  22. M.K. Livingston, M.M. Morgan, B.P. Johnson, K.E. Sung, L.A. Schuler, D.J. Beebe. Influence of extracellular matrix proteins on the behavior, viability and structure of normal breast ductal structures. In Preparation.
  23. M.M. Morgan, M.K. Livingston, B.P. Johnson, K.E. Sung, L.A. Schuler, D.J. Beebe. Modeling the adverse outcome pathway of estrogen receptor driven breast cancer progression in an organotypic system. In Preparation.
  24. N. Sehgal, E.S. Lippmann, B. Macintosh, P. Jiang, D. Chasman, S. Roy, R.S. Stewart, J.A. Thomson, and R.S. Ashton. Time-course RNA-seq analysis of human hindbrain development using hPSC-derived tissue models. In Preparation.
  25. E.H. Nguyen, W.L. Murphy. Endothelial cell responses to TGF-β signaling in 2D and 3D cell culture environments with defined mechanical properties. In Preparation.
  26.  E.H. Nguyen, W.T. Daly, N. Sheibani, W.L. Murphy. A synthetic alternative to Matrigel for endothelial tubulogenesis screening. In Preparation.