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Wednesday, October 14, 2015

Seminar Mark Bathe, MIT

Chembio/Materials/PChem seminar Chembio Seminar
1640 Chem
4:00 PM - 5:30 PM

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Contact:   nwalter@umich.edu

Speaker:   Mark Bathe, MIT
Talk:   Probing and programming biomolecular machines
Abstract:   Synthetic nucleic acids offer a high degree of programmability that enables the custom design of structured biomolecular assemblies at the nanometer-scale, as well as their integration with fluorescence probes to interrogate complex biomolecular machines in living systems. In this talk I will present work in our group to enable the high fidelity design and synthesis of programmed nucleic acid assemblies to organize chromophores for nanoscale energy transport, to structure toxin proteins for targeted cellular delivery, and to achieve other synthetic biomolecular applications. I will also present development and application of quantitative fluorescence imaging approaches integrated with synthetic nucleic acid probes to characterize mRNA transport and delivery mechanisms in live neurons, as well as to quantify synaptic protein composition and number using highly multiplexed super-resolution imaging. Together, these examples will cover diverse approaches to exploiting the integration of computation and synthetic nucleic acids to probe and program complex biomolecular machines. References Programming excitonic circuits using DNA scaffolds. Boulais, E., Sawaya, N., Veneziano, R., Andreoni, A., Lin, S., Woodbury, N., Yan, H., Aspuru-Guzik, A., Bathe, M. In preparation (2015). Designer DNA nanoparticles. Veneziano, R., Ratanalert, S., Pan, K., Zhang, F., Yan, H., Bathe, M. In preparation (2015). Mapping translation in live cells by tracking single molecules of mRNA and ribosomes. Katz, Z.B., English, B.P., Lionnet, T., Yoon, Y.J., Monnier, N., Ovryn, B., Bathe, M., Singer, R.H. Submitted (2015). Inferring transient particle transport dynamics in live cells. Monnier, N., Barry, Z., Park, H.Y., Su, K.C., Katz, Z., English, B., Dey, A., Pan, K., Cheeseman, I., Singer, R., Bathe, M. Nature Methods, 12: 838 (2015). Lattice-free prediction of three-dimensional structure of programmed DNA assemblies. Pan, K., Kim, D.N., Zhang, F., Adendorff, M., Yan, H., Bathe, M. Nature Communications, 5: 5578 (2014). Casting inorganic structures with DNA molds. Sun, W., Boulais, E., Hakobyan, Y., Wang, W., Guan, A., Bathe, M., Yin, P. Science 346: 717 (2014). Bayesian total internal reflection fluorescence correlation spectroscopy reveals hIAPP-induced plasma membrane domain organization in live cells. Guo, S.M., Bag, N., Mishra, A., Wohland, T., Bathe, M. Biophysical Journal, 106: 190-200 (2014). Structure-based model for light-harvesting properties of nucleic acid nanostructures. Pan, K., Boulais, E., Yang, L., Bathe, M. Nucleic Acids Research, 42: 2159-2170 (2014).