hahn lab

methods articles: microscopy image analysis / modeling

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Allen, R., Welch, C., Pankow, N., *Hahn, K.M., and *Elston, T.C. Stochastic methods for inferring states of cell migration. Frontiers in Physiology: Systems Biology, 11: 822, 2020.  PMC7365915  Online article | Free PMC article

Jin, L., Liu, B. Zhao, F, Hahn, S. Dong, B., Song, R., Elston, T.C., Xu, Y., and Hahn, K.M. Deep learning enables structured illumination microscopy with low light levels and enhanced speed. Nature Communications,11(1): 1934, 2020. PMC7176720. Online article | Free PMC article

O'Shaugnessy, E.C., Stone, O.J., LaFosse, P.K., Azoitei, M.L., Tsygankov, D., Heddleston, J.M., Legant, W.R., Wittchen, E.S., Burridge, K., Elston, T.C., Betzig, E., Chew, T.L., Adalsteinsson, D., and Hahn, K.M. Software for lattice light-sheet imaging of FRET biosensors, illustrated with a new Rap1 biosensor. J. Cell Biol., 218(9): 3153-3160, 2019. PMC6719445. Online article | Free PMC article

Liu, B., Hobson, C.M., Pimenta, F.M., Nelson, E., Hsiao, J., O’Brien, T., Falco, M.R., Hahn, K.M. and Superfine, R. VIEW-MOD: a versatile illumination engine with a modular optical design for fluorescence microscopy. Optics Express, 27(14): 19950-19972, 2019. Online article

Chu, P-H., Tsygankov, D., Berginski, M.E., Dagliyan, O., Gomez, S.M., Elston, T.C., Karginov, A.V. and Hahn, K.M. Engineered kinase activation reveals unique morphodynamic phenotypes and associated trafficking for Src family isoforms. Proc. Natl. Acad. Sci. U.S.A., 111(34): 12420–12425, 2014. PMC4151743. Online article | Free PMC article

Tsygankov, D., Chu, P-H., Chen, H., Elston, T.C. and Hahn, K.M. User-friendly tools for quantifying the dynamics of cellular morphology and intracellular protein clusters. Methods Cell Biol., 123: 409-427, 2014. PMC4504218. Online article | Free PMC article

Allen, R. J., Tsygankov, D., Zawistowski, J. S., Elston, T. C. and Hahn, K.M. Automated line scan analysis to quantify biosensor activity at the cell edge. Methods, 66(2014): 162–167, 2014. PMC4296898. Online article | Free PMC article

Hinde, E., Digman, M.A., Hahn, K.M. and Gratton, E. Millisecond spatiotemporal dynamics of FRET biosensors by the pair correlation function and the phasor approach to FLIM. Proc. Natl. Acad. Sci. U.S.A., 110(1): 135-140, 2013. PMC3538204. Online article| Free PMC article

Vilela, M., Halidi, N., Besson, S., Elliott, H., Hahn, K., Tytell, J. and Danuser, G. Fluctuation analysis of activity biosensor images for the study of information flow in signaling pathways. Methods Enzymol., 519: 253-276, 2013.  PMC4174660. Online article | Free PMC article

Hinde, E., Digman, M.A., Welch, C., Hahn, K.M. and Gratton, E. Biosensor FRET detection by the phasor approach to Fluorescence Lifetime Imaging Microscopy (FLIM). Microsc. Res. Tech., 75(3): 271-281, 2012.  PMC3523109 . Online article | Free PMC article

Berginski, M.E., Vitriol, E.A., *Hahn, K.M. and *Gomez, S.M. High-resolution quantification of focal adhesion spatiotemporal dynamics in living cells. PLoS ONE, 6: e22025, 2011. PMC3136503. Online article | Free PMC article

Shen, F., Hodgson, L., Price, J.H. and Hahn, K.M. Digital differential interference contrast autofocus for high-resolution oil-immersion microscopy. Cytometry A, 73: 658-666, 2008. Online article

Shen, F., Hodgson, L. and Hahn, K.M. Digital autofocus methods for automated microscopy. Methods Enzymol., 414: 620-632, 2006. Online article | PDF

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