2025
- A. Haydaroğlu, S. Dodgson, M. Krumin, A. Landau, L. J. Baruchin, T. Chang, J. Guo, D. Meyer, C. B. Reddy, J. Zhong, N. Ji, S. Schröder, K. D. Harris,
Suite3D:Volumeteric cell detection for two-photon microscopy
bioRxiv (2025). (Download)
2024
- Y. Zhang*, L. Yuan*, J. Wu, T. Nöbauer, R. Zhang, G. Xiao, M. Wang, H. Xie, Q. Dai, and A. Vaziri
A Systematically Optimized Miniaturized Mesoscope (SOMM) for large-scale calcium imaging in freely moving mice
Nature Biomedical Engineering 8, 754–774 (2024). (Download) - J. Manley
Whole-brain neural substrates of behavioral variability in the larval zebrafish
eLife, https://doi.org/10.7554/eLife.97014.1 (2024). (Download) - Bellafard, G. Namvar, J. Ko, A. Vaziri, and P. Golshani, Volatile working memory representations crystalize with practice
Nature 629, 1109–1117 (2024) (Download) - H. Sarafraz, T. Nöbauer, H. Kim, F. Soldevila, S. Gigan, and A. Vaziri
Speckle-enabled in vivo demixing of neural activity in the mouse brain
Biomedical Optics Express 15 (6), 3586-3608 (2024) (Download) - B. Tan, C. J. Browne, T. Nöbauer, A. Vaziri, J. M. Friedman, and E. J. Nestler
Drugs of abuse hijack a mesolimbic pathway that processes homeostatic need
Science, 384 (6693), 2024 (Download) - J. Manley
Whole-brain neural substrates of behavioral variability in the larval zebrafish
bioRxiv (2024). (Download) - J. Manley, S. Lu, K. Barber, J. Demas, H. Kim, D. Meyer, F.
- Y. Zhang*, L. Yuan*, J. Wu, T. Nöbauer, R. Zhang, G. Xiao, M. Wang, H. Xie, Q. Dai, and A. Vaziri
A Systematically Optimized Miniaturized Mesoscope (SOMM) for large-scale calcium imaging in freely moving mice
bioRxiv (2024). (Download) - J. Manley, J. Demas, H. Kim,
Simultaneous, cortex-wide and cellular-resolution neuronal population dynamics reveal an unbounded scaling of dimensionality with neuron number
bioRxiv (2024). (Download) - C. Yu, Y. Yu, L. M. Adsit, J. T. Chang, J. Barchini, A. H. Moberly, H. Benisty, J. Kim, B. K. Young, K. Heng, D. M. Farinella, A. Leikvoll, R. Pavan, R. Vistein, B. R. Nanfito, D. G. C. Hildebrand, S. Otero-Coronel, A. Vaziri, J. L. Goldberg, A. J. Ricci, D. Fitzpatrick, J. A. Cardin, M. Higley, G. B. Smith, P. Kara, K. J. Nielsen, I. T. Smith, and S. L. Smith
The Cousa objective: a long working distance air objective for multiphoton imaging in vivo
Nature Methods 21, 24–25 (2024). (Download)
2023
- C. Yu, Y. Yu, L. M. Adsit, J. T. Chang, J. Barchini, A. H. Moberly, H. Benisty, J. Kim, B. K. Young, K. Heng, D. M. Farinella, A. Leikvoll, R. Pavan, R. Vistein, B. R. Nanfito, D. G. C. Hildebrand, S. Otero-Coronel, A. Vaziri, J. L. Goldberg, A. J. Ricci, D. Fitzpatrick, J. A. Cardin, M. Higley, G. B. Smith, P. Kara, K. J. Nielsen, I. T. Smith, and S. L. Smith
The Cousa objective: a long working distance air objective for multiphoton imaging in vivo
bioRxiv (2023). (Download) - F. Soldevila, C. Moretti, T. Nöbauer, H. Sarafraz, A. Vaziri, and S. Gigan
Functional imaging through scattering medium via fluorescence speckle demixing and localization
Optics Express 31 (13), 21107-21117 (2023). (Download) - T. Nöbauer*, Y. Zhang*, H. Kim, and A. Vaziri
Mesoscale volumetric light-field (MesoLF) imaging of neuroactivity across cortical areas at 18 Hz
Nature Methods 20, 600-609 (2023). (Download) - T. Nöbauer*, Y. Zhang*, H. Kim, and A. Vaziri
Mesoscale volumetric light-field (MesoLF) imaging of neuroactivity across cortical areas at 18 Hz
bioRxiv (2023). (Download)
2022
- B. Tan*, T. Nöbauer*, C.J. Browne, E.J. Nestler, A. Vaziri, and J.M. Friedman
Dynamic Processing of Hunger and Thirst by Common Mesolimbic Neural Ensembles
PNAS 119 (43), e2211688119 (2022). (Download) - A. Abdelfattah, S. Ahuja, T. Akkin, S.R. Allu, D. Boas, J. Brake, E. Buckley, R. Campbell, and A. Vaziri
Neurophotonic tools for microscopic measurements and manipulation: status report
Neurophoton. 9 (S1), 013001 (2022). (Download)
2021
2020
- Q. Lin, J. Manley, M. Helmreich, F. Schlumm, J. M. Li, D. N. Robson, F. Engert, A. Schier, T. Nöbauer, and A. Vaziri
Cerebellar Neurodynamics Predict Decision Timing and Outcome on the Single-Trial Level.
Cell 180, 1-16 (2020). (Download) - T. Nöbauer and A. Vaziri
Light Field Microscopy for In Vivo Ca2+ Imaging
Book chapter in: Pavone F.S., Shoham S., editors. Handbook of Neurophotonics. 1st Edition. Boca Raton, FL: CRC Press (2020). p. 81–112. (Download)
2019
- Q. Lin, M. Helmreich, F. Schlumm, J. Li, D. Robson, F. Engert, A. Schier, T. Nöbauer, and A. Vaziri
Cerebellar Neurodynamics during Motor Planning Predict Decision Timing and Outcome on Single-Trial Level
bioRxiv, (Download) - S. Weisenburger, F. Tejera, J. Demas, B. Chen, J. Manley, F. T. Sparks, F. Martínez Traub, T. Daigle, H. Zeng, A. Losonczy, and A. 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
- O. Skocek*, T. Nöbauer*, L. Weilguny, F. Martínez Traub, C. N. Xia, M. I. Molodtsov, A. Grama, M. Yamagata, D. Aharoni, D. D. Cox, P. Golshani, and A. Vaziri
High-speed volumetric imaging of neuronal activity in freely moving rodents
Nature Methods 15, 429–432 (2018). (Download) - S. Weisenburger and A. 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) - M. A. Taylor, T. Nöbauer, A. Pernia-Andrade, F. Schlumm, and A. Vaziri
Brain-wide 3D light-field imaging of neuronal activity with speckle-enhanced resolution
Optica 5, 345-353 (2018). (Download, Open Access)
2017
- T. Nöbauer*, O. Skocek*, A. J Pernía-Andrade, L. Weilguny, F. Martínez Traub, M. I. Molodtsov, and A. Vaziri
Video rate volumetric Ca2+ imaging across cortex using seeded iterative demixing (SID) microscopy
Nature Methods 14, 811-818 (2017). (Download | bioRxiv preprint) - S. Weisenburger*, R. Prevedel* and A. Vaziri
Quantitative evaluation of two-photon calcium imaging modalities for high-speed volumetric calcium imaging in scattering brain tissue
Submitted (2017). (bioRxiv preprint)
2016
- I. F. Davidson, D. Goetz, M. P. Zaczek, M. I. Molodtsov, P. J. Huis in’t Veld, F. Weissmann, G. Litos, D. A. Cisneros, M. Ocampo‐Hafalla, R. Ladurner, F. Uhlmann, A. Vaziri, and J‐M. Peters
Rapid movement and transcriptional re‐localization of human cohesin on DNA
The EMBO Journal 35, 2671-2685 (2016). (Download, Open Access) - R. Prevedel, A. J. Verhoef, A. J. Pernía-Andrade*, S. Weisenburger*, B. S. Huang, T. Nöbauer, A. Fernández, J. E. Delcour, P. Golshani, A. Baltuska, and A. Vaziri
Fast volumetric calcium imaging across multiple cortical layers using sculpted light
Nature Methods 13, 1021-1028 (2016). (Download | PMC Full text) - M. I. Molodtsov, C. Mieck, J. Dobbelaere, A. Dammermann, S. Westermann, and A. Vaziri
A force-induced directional switch of a molecular motor enables parallel microtubule bundle formation
Cell 176:2, 539 (2016). (Download, Open Access) - J. N. Tinsley, M. I. Molodtsov, R. Prevedel, D. Wartmann, Jofre Espigulé-Pons, M. Lauwers, and A. 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) - P. Stevenson, C. Götz, C. R. Baiz, J. Akerboom, A. Tokmakoff, and A. Vaziri
Visualizing KcsA Conformational Changes upon Ion Binding by Infrared Spectroscopy and Atomistic Modeling
J. Phys. Chem. B 119 (18), 5824–5831 (2015). (Download) - U. Sezer, L. Wörner, J. Horak, L. Felix, J. Tüxen, C. Götz, A. Vaziri, M. Mayor, and M. Arndt
Laser-induced acoustic desorption of natural and functionalized biochromophores
Anal. Chem., 87 (11), 5614-5619 (2015). (Download) - T. Nöbauer, R. Prevedel, F. Schlumm, M. Hoffmann, M. I. Molodtsov, and A. 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. I. 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
- J. Espigulé-Pons, C. Goetz, A. Vaziri, and M. 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
- B. K. Andrasfalvy, B. V. 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) - K. Helmerson, M. F. Andersen, C. Ryu, P. Cladé, V. Natarajan, A. Vaziri, A. Hansen, and W. 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)