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Alipasha Vaziri

Our goal is to understand how stochasticity, non-linearity, correlations, and coupled excited state dynamics of biological systems and networks contribute to their function. We investigate these questions in different systems and at different levels, from the fundamental principles of protein and bio-molecular dynamics on the nanoscale to dynamic interactions in cellular networks, giving rise to physiological function. To address these questions, we adopt a multidisciplinary approach and develop new methods and technologies, such as advanced imaging and spectroscopy techniques based on ultrafast and quantum optics, and combine these with molecular biology, optogenetics, and electrophysiology.

Publications

2018

Skocek, O., Nöbauer, T., Weilguny, L., Martínez Traub, F., Xia, CN., Molodtsov, MI., Grama, A., Yamagata, M., Aharoni, D., Cox, DD., Golshani, P., Vaziri, A. (2018) High-speed volumetric imaging of neuronal activity in freely moving rodents. Nat Methods.

2017

Nöbauer, T., Skocek, O., Pernía-Andrade, AJ., Weilguny, L., Traub, FM., Molodtsov, MI., Vaziri, A. (2017) Video rate volumetric Ca2+ imaging across cortex using seeded iterative demixing (SID) microscopy. Nat Methods. 14(8):811-818

2016

Davidson, IF., Goetz, D., Zaczek, MP., Molodtsov, MI., Huis In 't Veld, PJ., Weissmann, F., Litos, G., Cisneros, DA., Ocampo-Hafalla, M., Ladurner, R., Uhlmann, F., Vaziri, A., Peters, JM. (2016) Rapid movement and transcriptional re-localization of human cohesin on DNA. EMBO J. 35(24):2671-2685
Molodtsov, MI., Mieck, C., Dobbelaere, J., Dammermann, A., Westermann, S., Vaziri, A. (2016) A Force-Induced Directional Switch of a Molecular Motor Enables Parallel Microtubule Bundle Formation. Cell. 167(2):539-552.e14
Prevedel, R., Verhoef, AJ., Pernía-Andrade, AJ., Weisenburger, S., Huang, BS., Nöbauer, T., Fernández, A., Delcour, JE., Golshani, P., Baltuska, A., Vaziri, A. (2016) Fast volumetric calcium imaging across multiple cortical layers using sculpted light. Nat Methods. 13(12):1021-1028
Tinsley, JN., Molodtsov, MI., Prevedel, R., Wartmann, D., Espigulé-Pons, J., Lauwers, M., Vaziri, A. (2016) Direct detection of a single photon by humans. Nat Commun. 7:12172

2015

Mieck, C., Molodtsov, MI., Drzewicka, K., van der Vaart, B., Litos, G., Schmauss, G., Vaziri, A., Westermann, S. (2015) Non-catalytic motor domains enable processive movement and functional diversification of the kinesin-14 Kar3. Elife. 4
Rupprecht, P., Prevedel, R., Groessl, F., Haubensak, WE., Vaziri, A. (2015) Optimizing and extending light-sculpting microscopy for fast functional imaging in neuroscience. Biomed Opt Express. 6(2):353-68
Sezer, U., Wörner, L., Horak, J., Felix, L., Tüxen, J., Götz, C., Vaziri, A., Mayor, M., Arndt, M. (2015) Laser-induced acoustic desorption of natural and functionalized biochromophores. Anal Chem. 87(11):5614-9
Stevenson, P., Götz, C., Baiz, CR., Akerboom, J., Tokmakoff, A., Vaziri, A. (2015) Visualizing KcsA conformational changes upon ion binding by infrared spectroscopy and atomistic modeling. J Phys Chem B. 119(18):5824-31

2014

Prevedel, R., Yoon, YG., Hoffmann, M., Pak, N., Wetzstein, G., Kato, S., Schrödel, T., Raskar, R., Zimmer, M., Boyden, ES., Vaziri, A. (2014) Simultaneous whole-animal 3D imaging of neuronal activity using light-field microscopy. Nat Methods. 11(7):727-30

2013

Schrödel, T., Prevedel, R., Aumayr, K., Zimmer, M., Vaziri, A. (2013) Brain-wide 3D imaging of neuronal activity in Caenorhabditis elegans with sculpted light. Nat Methods. 10(10):1013-20
Tedeschi, A., Wutz, G., Huet, S., Jaritz, M., Wuensche, A., Schirghuber, E., Davidson, IF., Tang, W., Cisneros, DA., Bhaskara, V., Nishiyama, T., Vaziri, A., Wutz, A., Ellenberg, J., Peters, JM. (2013) Wapl is an essential regulator of chromatin structure and chromosome segregation. Nature. 501(7468):564-8

2012

Vaziri, A., Emiliani, V. (2012) Reshaping the optical dimension in optogenetics. Curr Opin Neurobiol. 22(1):128-37

2011

York, AG., Ghitani, A., Vaziri, A., Davidson, MW., Shroff, H. (2011) Confined activation and subdiffractive localization enables whole-cell PALM with genetically expressed probes. Nat Methods. 8(4):327-33

2010

Andrasfalvy, BK., Zemelman, BV., Tang, J., Vaziri, A. (2010) Two-photon single-cell optogenetic control of neuronal activity by sculpted light. Proc Natl Acad Sci U S A. 107(26):11981-6
Losonczy, A., Zemelman, BV., Vaziri, A., Magee, JC. (2010) Network mechanisms of theta related neuronal activity in hippocampal CA1 pyramidal neurons. Nat Neurosci. 13(8):967-72
Tang, J., Akerboom, J., Vaziri, A., Looger, LL., Shank, CV. (2010) Near-isotropic 3D optical nanoscopy with photon-limited chromophores. Proc Natl Acad Sci U S A. 107(22):10068-73
Vaziri A., Plenio M. (2010) Quantum coherence in ion channels: resonances, transport and verification New Journal of Physics. 12(085001)
Vaziri, A., Shank, CV. (2010) Ultrafast widefield optical sectioning microscopy by multifocal temporal focusing. Opt Express. 18(19):19645-55

2008

Vaziri, A., Tang, J., Shroff, H., Shank, CV. (2008) Multilayer three-dimensional super resolution imaging of thick biological samples. Proc Natl Acad Sci U S A. 105(51):20221-6

2006

Andersen, MF., Ryu, C., Cladé, P., Natarajan, V., Vaziri, A., Helmerson, K., Phillips, WD. (2006) Quantized rotation of atoms from photons with orbital angular momentum. Phys Rev Lett. 97(17):170406
Gröblacher S., Jennewein T., Vaziri A., Weihs G., Zeilinger A. (2006) Experimental quantum cryptography with qutrits New Journal of Physics. 8(75)
Ryu, C., Andersen, MF., Vaziri, A., d'Arcy, MB., Grossman, JM., Helmerson, K., Phillips, WD. (2006) High-order quantum resonances observed in a periodically kicked Bose-Einstein condensate. Phys Rev Lett. 96(16):160403

2005

Molina-Terriza, G., Vaziri, A., Ursin, R., Zeilinger, A. (2005) Experimental quantum coin tossing. Phys Rev Lett. 94(4):040501

2004

Molina-Terriza, G., Vaziri, A., Rehácek, J., Hradil, Z., Zeilinger, A. (2004) Triggered qutrits for quantum communication protocols. Phys Rev Lett. 92(16):167903

2003

Vaziri, A., Pan, JW., Jennewein, T., Weihs, G., Zeilinger, A. (2003) Concentration of higher dimensional entanglement: qutrits of photon orbital angular momentum. Phys Rev Lett. 91(22):227902

2002

Vaziri A, Weihs G., Zeilinger A. (2002) Superpositions of the orbital angular momentum for applications in quantum experiments Journal of Optics B: Quantum and Semiclassical Optics. 4(2):S1-S5
Vaziri, A., Weihs, G., Zeilinger, A. (2002) Experimental two-photon, three-dimensional entanglement for quantum communication. Phys Rev Lett. 89(24):240401

2001

Mair, A., Vaziri, A., Weihs, G., Zeilinger, A. (2001) Entanglement of the orbital angular momentum states of photons. Nature. 412(6844):313-6