Adjunct Assistant Professor
Eng.Sc.D. in Biomedical Engineering
- Computational Biology, Systems Biology, Cancer
The research of my lab is focused on the study of biological processes from an integrated, or systems viewpoint – commonly referred to as Systems Biology. We are particularly interested in better understanding the “wiring” of biological systems and the discovery of underlying principles in biological organization. How do we infer physical and/or functional relationships between molecules? How does the topology of an interaction network affect its dynamics and stability? In what way are signaling pathways modified through perturbation through disease, chemical exposure, or genetic variation? These are the types of questions we are interested in. In addition, we are also interested in applying what we learn from biology to the improvement of engineered systems.
Our work typically entails the development and application of mathematical models and/or computational methods that, along with extensive collaborations with many experimental groups, tries to provide a better understanding of fundamental biology as well as applications in medicine. While we are currently oriented on the computational side of things, we are doing more in our lab experimentally and students have the opportunity to combine both computation and experiment into their work. See the Gomez lab research page for more information and sample projects.
Click above for PubMed publications.
- Duncan JS, Whittle MC, Nkamura K, Abell AN, Midland AA, Zawistowksi JS, Johnson NL, Granger DA, Jordan NV, Darr D, Usary J, Major B, He X, Hoadley K, Sharpless NE, Perou CM, Gomez SM, Jin J, Frye SV, Earp HS, Graves LM and Johnson GL. (2012) Dynamic reprogramming of the kinome in response to targeted MEK inhibition in triple negative breast cancer. Cell 149(2): 307-21.
- Wu C, Asokan SB, Berginski ME, Sharpless NE, Griffith JD, Gomez SM and Bear JE. (2012) Arp2/3 complex is critical for lamellipodia and organization of cell-matrix adhesion but dispensable for fibroblast chemotaxis. Cell 148(5): 973-87.
- Midland AA, Whittle MC, Duncan JS, Abell AN, Nakamura K, Zawistowski JS, Carey LA, Earp HS 3rd, Graves LM, Gomez SM and Johnson GL. (2012) Defining the expressed breast cancer kinome. Cell Research 2012 Feb 7. Doi:10.1038/cr.2012.25.
- Xu K, Morgan KT, Todd A, Elston TC and Gomez SM. (2011) A whole-body model for glycogen regulation reveals a critical role for substrate cycling in maintaining blood glucose homeostasis. PLoS Computational Biology 7(12): e1002272.
- Berginski ME, Vitriol E, Hahn KM and Gomez SM. (2011) High-resolution quantification of focal adhesion spatiotemporal dynamics in living cells. PLoS ONE 6(7): e22025.
- Abell AN, Jordan NV, Huang W, Prat A, Midland AA, Johnson NL, Granger DA, Mieczkowski PA, Perou CM, Gomez SM, Li L and Johnson GL. (2011) MAP3K4/CBP-Regulated H2B Acetylation Controls Epithelial-Mesenchymal Transition in Trophoblast Stem Cells. Cell Stem Cell 8(5): 525-37.
- Doolittle, J.M. and Goomez, S.M. (2011) Mapping protein interactions between Dengue virus and its human and insect hosts. PLoS Neglected Tropical Diseases 5(2): e954.
- Doolittle, J.M. and Gomez, S.M. (2010) Structural similarity-based predictions of protein interactions between HIV-1 and Homo sapiens. Virology Journal 7(1): 82.