2019
- Qian Lin, Magdalena Helmreich, Friederike Schlumm, Jennifer Li, Drew Robson, Florian Engert, Alexander Schier, Tobias Nöbauer, and Alipasha Vaziri
Cerebellar Neurodynamics during Motor Planning Predict Decision Timing and Outcome on Single-Trial Level
BioRxiv, https://doi.org/10.1101/833889
- Siegfried Weisenburger, Frank Tejera, Jeffrey Demas, Brandon Chen, Jason Manley, Fraser T. Sparks, Francisca Martínez Traub, Tanya Daigle, Hongkui Zeng, Attila Losonczy, and Alipasha Vaziri
Volumetric Ca2+ Imaging in the Mouse Brain using Hybrid Multiplexed Sculpted Light (HyMS) Microscopy
Cell 177, 1–17 (2019). (Download)
Featured as a Nature Methods Research Highlight
2018
- Oliver Skocek, Tobias Nöbauer, Lukas Weilguny, Francisca Martínez Traub, Chuying Naomi Xia, Maxim I. Molodtsov, Abhinav Grama, Masahito Yamagata, Daniel Aharoni, David D. Cox, Peyman Golshani, and Alipasha Vaziri
High-speed volumetric imaging of neuronal activity in freely moving rodents
Nature Methods 15, 429–432 (2018). (Download)
- Siegfried Weisenburger and Alipasha Vaziri
A Guide to Emerging Technologies for Large-Scale and Whole-Brain Optical Imaging of Neuronal Activity
Annual Review of Neuroscience 41, 431 – 452 (2018). (Download | arXiv preprint)
- Michael A. Taylor, Tobias Nöbauer, Alejandro Pernia-Andrade, Friederike Schlumm, and Alipasha Vaziri
Brain-wide 3D light-field imaging of neuronal activity with speckle-enhanced resolution
Optica 5, 345-353 (2018). (Download, Open Access)
2017
- Tobias Nöbauer, Oliver Skocek, Alejandro J Pernía-Andrade, Lukas Weilguny, Francisca Martínez Traub, Maxim I Molodtsov, and Alipasha Vaziri
Video rate volumetric Ca2+ imaging across cortex using seeded iterative demixing (SID) microscopy
Nature Methods 14, 811-818 (2017). (Download | bioRxiv preprint)
- Siegfried Weisenburger*, Robert Prevedel* and Alipasha Vaziri
Quantitative evaluation of two-photon calcium imaging modalities for high-speed volumetric calcium imaging in scattering brain tissue
Submitted (2017). (bioRxiv preprint)
2016
- Iain F. Davidson, Daniela Goetz, Maciej P. Zaczek, Maxim I. Molodtsov, Pim J. Huis in’t Veld, Florian Weissmann, Gabriele Litos, David A. Cisneros, Maria Ocampo‐Hafalla, Rene Ladurner, Frank Uhlmann, Alipasha Vaziri, and Jan‐Michael Peters
Rapid movement and transcriptional re‐localization of human cohesin on DNA
The EMBO Journal 35, 2671-2685 (2016). (Download, Open Access)
- Robert Prevedel, Aart J Verhoef, Alejandro J Pernía-Andrade*, Siegfried Weisenburger*, Ben S Huang, Tobias Nöbauer, Alma Fernández, Jeroen E Delcour, Peyman Golshani, Andrius Baltuska, and Alipasha Vaziri
Fast volumetric calcium imaging across multiple cortical layers using sculpted light
Nature Methods 13, 1021-1028 (2016). (Download | PMC Full text)
- Maxim I. Molodtsov, Christine Mieck, Jeroen Dobbelaere, Alexander Dammermann, Stefan Westermann and Alipasha Vaziri
A force-induced directional switch of a molecular motor enables parallel microtubule bundle formation
Cell 176:2, 539 (2016). (Download, Open Access)
- Jonathan N. Tinsley, Maxim I. Molodtsov, Robert Prevedel, David Wartmann, Jofre Espigulé-Pons, Mattias Lauwers, and Alipasha Vaziri
Direct Detection of a Single Photon by Humans
Nature Communications 7, 12172 (2016). (Download, Open Access)
2015
- Y. Park, H. Wang, T. Nobauer, A. Vaziri, and C. E. Priebe
Anomaly Detection on Whole-Brain Functional Imaging of Neuronal Activity using Graph Scan Statistics
ACM Conference on Knowledge Discovery and Data Mining (KDD), Workshop on Outlier Definition, Detection, and Description (ODDx3) (2015). (Download PDF)
- Paul Stevenson, Christoph Götz, Carlos R. Baiz, Jasper Akerboom, Andrei Tokmakoff, and Alipasha Vaziri
Visualizing KcsA Conformational Changes upon Ion Binding by Infrared Spectroscopy and Atomistic Modeling
J. Phys. Chem. B 119 (18), 5824–5831 (2015). (Download)
- Ugur Sezer, Lisa Wörner, Johannes Horak, Lukas Felix, Jens Tüxen, Christoph Götz, Alipasha Vaziri, Marcel Mayor, and Markus Arndt
Laser-induced acoustic desorption of natural and functionalized biochromophores
Anal. Chem., 87 (11), 5614-5619 (2015). (Download)
- Tobias Nöbauer, Robert Prevedel, Friederike Schlumm, Maximilian Hoffmann, Maxim Molodtsov, and Alipasha Vaziri
Whole-brain dynamics of neuronal circuits enabled by sculpted light and light field microscopy
IEEE/EMBS – Neural Engineering, 869-872 (2015) (Download)
- C. Mieck, M. Molodtsov, K. Drzewicka, B. van der Vaart, G. Litos, G. Schmauss, A. Vaziri, and S. Westermann
Non-catalytic motor domains enable processive movement and functional diversification of the kinesin-14 Kar3
eLife 10.7554/eLife.04489 (2015). (Download, Open Access)
- P. Rupprecht, R. Prevedel, F. Groessl, W. Haubensak, and A. Vaziri
Optimizing and extending light-sculpting microscopy for fast functional imaging in neuroscience
Biomedical Optics Express 6:2, 353-368 (2015). (Download) | arXiv preprint)
2014
- Jofre Espigulé-Pons, Christoph Goetz, Alipasha Vaziri, and Markus Arndt
Physical constraints for the Stoneham model for light-dependent magnetoreception
arXiv:1412.7369 (2014). (Download)
- P. Stevenson, C. Goetz, C. R. Baiz, A. Vaziri, and A. Tokmakoff
2D IR as an Experimental Probe of Ion-Induced Structural Changes in KcsA
Biophysical Journal 106:2, 539A (2014). (Download)
- R. Prevedel*, Y. Yoon*, M. Hoffmann, N. Pak, G. Wetzstein, S.Kato, T. Schrödel, R. Raskar,M. Zimmer,E. Boyden and A. Vaziri
Simultaneous whole-animal 3D imaging of neuronal activity using light-field microscopy
Nature Methods 11, 727–730 (2014). (Download | arXiv preprint)

2013
- T. Schrödel*, R. Prevedel*, K. Aumayr, M. Zimmer, and A. Vaziri
Brain-wide 3D imaging of neuronal activity Caenorhabditis elegans with sculpted light
Nature Methods 10, 1013-1020 (2013). (Download | arXiv preprint)
- A. Tedeschi, G. Wutz, S. Huet, M. Jaritz, A. Wuensche, E.Schirghuber, I.Finley Davidson, W. Tang, D. Cisneros, V. Bhaskara, T. Nishiyama, A. Vaziri, A. Wutz, J. Ellenberg, and J. Peters
Wapl is an essential regulator of chromatin structure and chromosome segregation
Nature 501, 564-568 (2013). (Download)
2012
- A. Vaziri and V. Emiliani
Reshaping the Optical dimension in optogenetics
Current Opinion in Neurobiology 22, 128-137 (Download)
2011
- Z. Ganim, A. Tokmakoff, and A. Vaziri
Vibrational excitons in ionophores Experimental probes for quantum coherence-assisted ion transport and selectivity in ion channels
New J. Phys. 31, 113030 (2011). (Download)
- York, AG., Ghitani, A., Vaziri, A., Davidson, MW., and Shroff, H.
Confined activation and subdiffractive localization enables whole-cell PALM with genetically expressed probes
Nature Methods 8, 327-333 (2011). (Download)
2010
- BK. Andrasfalvy, BV. Zemelman, J. Tang, and A. Vaziri,
Two-photon single-cell optogenetic control of neuronal activity by sculpted light
Proc. Natl. Acad. Sci. USA 107(26), 11981-11986 (2010). (Download)
- Losonczy, A., Zemelman, BV., Vaziri, A., and Magee, JC.
Network mechanisms of theta related neuronal activity in hippocampal CA1 pyramidal neurons
Nature Neuroscience 13(8), 967-972 (2010). (Download)
- Tang, J., Akerboom, J., Vaziri, A., Looger, LL., and Shank, CV.
Near-isotropic 3D optical nanoscopy with photon-limited chromophores
Proc. Natl. Acad. Sci. USA 107(22), 10068-10073 (2010). (Download)
- Vaziri, A. and Plenio, M.
Quantum coherence in ion channels: resonances, transport and verification
New Journal of Physics 12, 085001 (2010). (Download)
- Vaziri, A. and Shank, CV.
Ultrafast widefield optical sectioning microscopy by multifocal temporal focusing
Opt Express. 18(19), 19645-19655 (2010). (Download)
2009
- K. Helmerson, M. F. Andersen, P. Cladé, V. Natarajan, W. D. Phillips, A. Ramanathan, C. Ryu, and A. Vaziri
Vortices and Persistent Currents: Rotating a Bose-Einstein Condensate Using Photons with Orbital Angular Momentum
Topologica 2:1 002 (2009). (Download)
2008
- Vaziri, A., Tang, J., Shroff, H., and Shank, CV.
Multilayer three-dimensional super resolution imaging of thick biological samples
Proc. Natl. Acad. Sci. USA 105(51), 20221-20226 (2008). (Download)
2007
- K. Helmerson, M. F. Andersen, C. Ryu, V. Nararajan, A. Vaziri, and W. D. Phillips
Generating Persistent Currents States of Atoms Using Orbital Angular Momentum of Photons
Nucl. Phys. A 790, 705C-712C (2007). (Download)
2006
- Andersen, MF., Ryu, C., Cladé, P., Natarajan, V., Vaziri, A., Helmerson, K., and Phillips, WD.
Quantized rotation of atoms from photons with orbital angular momentum
Phys Rev Lett. 97(17), 170406 (2006). (Download)
- Kristian Helmerson, Mikkel F. Andersen, Changhyun Ryu, Pierre Cladé, Vasant Natarajan, Alipasha Vaziri, Azure Hansen, and William D. Phillips
Rotating a Bose-Einstein condensate using photons with orbital angular momentum
Proc. SPIE 6326, Optical Trapping and Optical Micromanipulation III, 632603 (2006). (Download)
- Gröblacher S., Jennewein T., Vaziri A., Weihs G., and Zeilinger A.
Experimental quantum cryptography with qutrits
New Journal of Physics 8 75 (2006). (Download)
- Ryu, C., Andersen, MF., Vaziri, A., d’Arcy, MB., Grossman, JM., Helmerson, K., and Phillips, WD.
High-order quantum resonances observed in a periodically kicked Bose-Einstein condensate
Phys Rev Lett. 96(16), 160403 (2006). (Download)
2005
- Molina-Terriza, G., Vaziri, A., Ursin, R., and Zeilinger, A.
Experimental quantum coin tossing
Phys Rev Lett. 94(4), 040501 (2005). (Download)
2004
- Molina-Terriza, G., Vaziri, A., Rehácek, J., Hradil, Z., and Zeilinger, A.
Triggered qutrits for quantum communication protocols
Phys Rev Lett. 92(16), 167903 (2004). (Download)
2003
- Vaziri, A., Pan, JW., Jennewein, T., Weihs, G., and Zeilinger, A.
Concentration of higher dimensional entanglement: qutrits of photon orbital angular momentum
Phys Rev Lett. 91(22), 227902 (2003). (Download)
2002
- Vaziri A., Weihs G., and Zeilinger A.
Superpositions of the orbital angular momentum for applications in quantum experiments
Journal of Optics B: Quantum and Semiclassical Optics 4(2), S1-S5 (2002). (Download)
- Vaziri, A., Weihs, G., and Zeilinger, A.
Experimental two-photon, three-dimensional entanglement for quantum communication
Phys Rev Lett. 89(24), 240401 (2002). (Download)
2001
- Mair, A., Vaziri, A., Weihs, G., and Zeilinger, A.
Entanglement of the orbital angular momentum states of photons
Nature 412(6844), 313-316 (2001). (Download)