Axel Nimmerjahn

Associate Professor

Waitt Advanced Biophotonics Center

Salk Institute for Biological Studies - Publications

all Publications


Patriarchi, T., Cho, J.R., Merten, K., Howe, M.W., Marley, A., Xiong, W.H., Folk, R.W., Broussard, G.J., Liang, R., Jang, M.J., Zhong, H., Dombeck, D., von Zastrow, M., Nimmerjahn, A., Gradinaru, V., Williams, J.T., Tian, L. Ultrafast neuronal imaging of dopamine dynamics with designed genetically encoded sensors. (2018) Science. DOI: 10.1126/science.aat4422

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Tufail, Y., Cook, D., Fourgeaud, L., Powers, C.J., Merten, K., Clark, C.L., Hoffman, E., Ngo, A., Sekiguchi, K.J., O'Shea, C.C., Lemke, G., Nimmerjahn, A. Phosphatidylserine Exposure Controls Viral Innate Immune Responses by Microglia. (2017) Neuron. 93(3):574-586.e8. DOI: 10.1016/j.neuron.2016.12.021

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Sekiguchi, K.J., Shekhtmeyster, P., Merten, K., Arena, A., Cook, D., Hoffman, E., Ngo, A., Nimmerjahn, A. Imaging large-scale cellular activity in spinal cord of freely behaving mice. (2016) Nature Communications. 7:11450. DOI: 10.1038/ncomms11450

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Fourgeaud, L., Través, P.G., Tufail, Y., Leal-Bailey, H., Lew, E.D., Burrola, P.G., Callaway, P., Zagórska, A., Rothlin, C.V., Nimmerjahn, A., Lemke, G. TAM receptors regulate multiple features of microglial physiology. (2016) Nature. 532(7598):240-244. DOI: 10.1038/nature17630

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Nimmerjahn, A., Bergles, D.E. Large-scale recording of astrocyte activity. (2015) Current Opinion in Neurobiology. 32:95-106. DOI: 10.1016/j.conb.2015.01.015

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Knowland, D., Arac, A., Sekiguchi, K.J., Hsu, M., Lutz, S.E., Perrino, J., Steinberg, G.K., Barres, B.A., Nimmerjahn, A., Agalliu, D. Stepwise recruitment of transcellular and paracellular pathways underlies blood-brain barrier breakdown in stroke. (2014) Neuron. 82(3):603-17. DOI: 10.1016/j.neuron.2014.03.003

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Devor, A., Bandettini, P.A., Boas, D.A., Bower, J.M., Buxton, R.B., Cohen, L.B., Dale, A.M., Einevoll, G.T., Fox, P.T., Franceschini, M.A., Friston, K.J., Fujimoto, J.G., Geyer, M.A., Greenberg, J.H., Halgren, E., Hämäläinen, M.S., Helmchen, F., Hyman, B.T., Jasanoff, A., Jernigan, T.L., Judd, L.L., Kim, S.G., Kleinfeld, D., Kopell, N.J., Kutas, M., Kwong, K.K., Larkum, M.E., Lo, E.H., Magistretti, P.J., Mandeville, J.B., Masliah, E., Mitra, P.P., Mobley, W.C., Moskowitz, M.A., Nimmerjahn, A., Reynolds, J.H., Rosen, B.R., Salzberg, B.M., Schaffer, C.B., Silva, G.A., So, P.T., Spitzer, N.C., Tootell, R.B., Van Essen, D.C., Vanduffel, W., Vinogradov, S.A., Wald, L.L., Wang, L.V., Weber, B., Yodh, A.G. The challenge of connecting the dots in the B.R.A.I.N. (2013) Neuron. 80(2):270-4. DOI: 10.1016/j.neuron.2013.09.008

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Nimmerjahn, A. Two-photon imaging of microglia in the mouse cortex in vivo. (2012) Cold Spring Harbor Protocols. 2012(5). DOI: 10.1101/pdb.prot069294

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Nimmerjahn, A. Optical window preparation for two-photon imaging of microglia in mice. (2012) Cold Spring Harbor Protocols. 2012(5). DOI: 10.1101/pdb.prot069286

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Nimmerjahn, A. Surgical implantation of a head plate in mice in preparation for in vivo two-photon imaging of microglia. (2012) Cold Spring Harbor Protocols. 2012(5). DOI: 10.1101/pdb.prot069278

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Nimmerjahn, A., Helmchen, F. In vivo labeling of cortical astrocytes with sulforhodamine 101 (SR101). (2012) Cold Spring Harbor Protocols. 2012(3):326-34. DOI: 10.1101/pdb.prot068155

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Kerr, J.N., Nimmerjahn, A. Functional imaging in freely moving animals. (2012) Current Opinion in Neurobiology. 22(1):45-53. DOI: 10.1016/j.conb.2011.12.002

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Tremblay, M..., Stevens, B., Sierra, A., Wake, H., Bessis, A., Nimmerjahn, A. The role of microglia in the healthy brain. (2011) Journal of Neuroscience. 31(45):16064-9. DOI: 10.1523/JNEUROSCI.4158-11.2011

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Ghosh, K.K., Burns, L.D., Cocker, E.D., Nimmerjahn, A., Ziv, Y., Gamal, A.E., Schnitzer, M.J. Miniaturized integration of a fluorescence microscope. (2011) Nature Methods. 8(10):871-8. DOI: 10.1038/nmeth.1694

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Mukamel, E.A., Nimmerjahn, A., Schnitzer, M.J. Automated analysis of cellular signals from large-scale calcium imaging data. (2009) Neuron. 63(6):747-60. DOI: 10.1016/j.neuron.2009.08.009

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Nimmerjahn, A., Mukamel, E.A., Schnitzer, M.J. Motor behavior activates Bergmann glial networks. (2009) Neuron. 62(3):400-12. DOI: 10.1016/j.neuron.2009.03.019

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Nimmerjahn, A. Astrocytes going live: advances and challenges. (2009) Journal of Physiology. 587(Pt 8):1639-47. DOI: 10.1113/jphysiol.2008.167171

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Flusberg, B.A., Nimmerjahn, A., Cocker, E.D., Mukamel, E.A., Barretto, R.P., Ko, T.H., Burns, L.D., Jung, J.C., Schnitzer, M.J. High-speed, miniaturized fluorescence microscopy in freely moving mice. (2008) Nature Methods. 5(11):935-8. DOI: 10.1038/nmeth.1256

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Sullivan, M.R., Nimmerjahn, A., Sarkisov, D.V., Helmchen, F., Wang, S.S. In vivo calcium imaging of circuit activity in cerebellar cortex. (2005) Journal of Neurophysiology. 94(2):1636-44. DOI: 10.1152/jn.01013.2004

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Nimmerjahn, A., Kirchhoff, F., Helmchen, F. Resting microglial cells are highly dynamic surveillants of brain parenchyma in vivo. (2005) Science. 308(5726):1314-8. DOI: 10.1126/science.1110647

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Dittgen, T., Nimmerjahn, A., Komai, S., Licznerski, P., Waters, J., Margrie, T.W., Helmchen, F., Denk, W., Brecht, M., Osten, P. Lentivirus-based genetic manipulations of cortical neurons and their optical and electrophysiological monitoring in vivo. (2004) Proceedings of the National Academy of Sciences of the United States of America. 101(52):18206-11. DOI: 10.1073/pnas.0407976101

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Göbel, W., Kerr, J.N., Nimmerjahn, A., Helmchen, F. Miniaturized two-photon microscope based on a flexible coherent fiber bundle and a gradient-index lens objective. (2004) Opt Lett. 29(21):2521-3.

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Nimmerjahn, A., Kirchhoff, F., Kerr, J.N., Helmchen, F. Sulforhodamine 101 as a specific marker of astroglia in the neocortex in vivo. (2004) Nature Methods. 1(1):31-7. DOI: 10.1038/nmeth706

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Göbel, W., Nimmerjahn, A., Helmchen, F. Distortion-free delivery of nanojoule femtosecond pulses from a Ti:sapphire laser through a hollow-core photonic crystal fiber. (2004) Opt Lett. 29(11):1285-7.

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Kim, J., Dittgen, T., Nimmerjahn, A., Waters, J., Pawlak, V., Helmchen, F., Schlesinger, S., Seeburg, P.H., Osten, P. Sindbis vector SINrep(nsP2S726): a tool for rapid heterologous expression with attenuated cytotoxicity in neurons. (2004) Journal of Neuroscience Methods. 133(1-2):81-90.

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Education

MS, Physics, Max Planck Institute for Medical Research/University of Heidelberg, Germany
PhD, Physics, Max Planck Institute for Medical Research/University of Heidelberg, Germany
Postdoctoral Fellow, Biology and Applied Physics, Stanford University, U.S.A.


Awards & Honors

  • 2013 NIH EUREKA Award
  • 2012 NIH Director's New Innovator Award
  • 2011 Whitehall Foundation Award
  • 2011 Rita Allen Scholar Award
  • 2006 Human Frontiers Science Program (HFSP) Postdoctoral Fellowship
  • 2006 Du Bois-Reymond Award
  • 2006 Otto Hahn Medal and Award

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