Peer Reviewed Articles


43.     Li Y*, Funamizu A, Kuhn B, Doya K (under review) Dual automatic relevance determination for linear latent variable models and its application to calcium imaging data analysis

42.     Desforges M*, Flotho P, Kuhn B, Doya K (under review) Locomotion State Shapes Spatiotemporal Neuromodulator Dynamics in the Secondary Motor Cortex

41.     Nomura S*, Flotho P, Kuhn B* (under review) Behavioral state-dependent protein kinase A activity modulated by noradrenaline and dopamine in layer II/III of somatosensory cortex

40.     Tran H-D, Shim M-K, Denman CR, Han R-R, Kuhn B, Arbuthnott GW, and Jo J (under review) Generation of human striatal-midbrain assembloids from human pluripotent stem cells to model alpha-synuclein propagation

39.    Li M*, Kuhn B* (2024) Protocol for inducing severe Scn2a insufficiency in mice by intracerebroventricular antisense oligonucleotide injection, STAR Protocols.

38.     Wang H-Y, Takagi H, Stoney PN, Echeverria A, Kuhn B, Hsu KS, and Takahashi T (2024) Glutamate and Neuronal/Endothelial Nitric Oxide Regeneratively Express Anoxia-Induced LTP at Hippocampal CA1 Synapses, iScience.

37.    Denman CR, Tran H-D, Shin M-K, Ryu J, Kuhn B, Jo J* (2023) Generation of a Human Embryonic Stem Cell Reporter Line, TMEM119-EGFP, for the Visualisation of In Vitro Differentiated Human Microglia, Stem Cell Research.

36.     Li M*, Eltabbal M, Kuhn B* (2023) Scn2a insufficiency causes altered in vivo neuronal calcium activity and coactivity. iScience.

35.     Seemann KM*, Kovács A, Schmid TE, Ilicic K, Multhoff G, Dunin-Borkowski RE, Michelagnoli C, Cieplicka-Oryńczak N, Jana S, Colombi G, Jentschel M, Schneider CM, & Kuhn B (2023) Anti-cancer radiation carried by neutron-activated plasmonic FePt-Yb2O3 core-shell nanomagnets. iScience.

34.      Youssef M, Hamada H, Lai E, Kiyama Y , Eltabbal M, Kuhn B, Yamamoto T* (2022) TOB is an effector of the hippocampus-mediated acute stress response. Translational Psychiatry.

33.      Lee RX*, Stephens GJ, Kuhn B (2022) Social relationship as a factor for the development of stress incubation in adult mice​. Frontiers in Behavioral Neuroscience.

32.     Flotho P*, Nomura S, Kuhn B, Strauss DJ (2022) Software for Non-Parametric Image Registration of 2-Photon Imaging Data. Journal of Biophotonics.

31.      Georgiou L*, Echeverría A, Georgiou A, & Kuhn B* (2022) Ca2+ activity maps of astrocytes tagged by axo-astrocytic AAV transfer. Science Advances.

OIST Rress Release

30.      Cecchetto C*, Vassanelli S, Kuhn B* (2021) Simultaneous two-photon voltage or calcium imaging and multi-channel LFP recordings in barrel cortex of awake and anesthetized mice. Frontiers in Neuroscience.

29.      Augustinaite A* & Kuhn B (2021) Intrinsic optical signal imaging and targeted injections through a chronic cranial window of a head-fixed mouse. STAR Protocols.

28.      Flotho P*, Thinnes D, Kuhn B, Roome CJ, Vibell JF, & Strauss DJ (2021) Fast Variational Alignment of non-flat 1D Displacements for Applications in Neuroimaging. Journal of Neuroscience Methods.

27.      Augustinaite S* & Kuhn B (2020) Chronic cranial window for imaging cortical activity in head-fixed mice. STAR Protocols. DOI:

26.      Dorgans K*, Kuhn B, & Uusisaari MY* (2020) Imaging subthreshold voltage oscillation with cellular resolution in the inferior olive in vitro. Frontiers in Cellular Neuroscience. DOI:

25.      Roome CJ* & Kuhn B* (2020) Coincidence detection in Purkinje neuron dendrites of awake mice. eLife2020;9:e59619 DOI: 10.7554/eLife.59619

OIST Press Release

24.      Nomura S*, Tricoire L, Cohen I, Kuhn B, Lambolez B*, & Hepp R* (2020) Combined optogenetic approaches reveal the dynamics of endogenous catecholaminergic transmission in the brain. iScience 23:11. DOI:

23.      Augustinaite S* & Kuhn B* (2020) Complementary Ca2+ activity of sensory activated and suppressed layer 6 corticothalamic neurons reflects behavioral state. Current Biology 30:20, p.3945-3960.E5.  DOI:

OIST Press Release

22.      Dalphin N*, Dorgans K, Khaskin E, & Kuhn B* (2020) Voltage imaging of cortical oscillations in layer 1 with two-photon microscopy. eNeuro DOI:

21.      Mori K* & Kuhn B* (2018) Imaging Ca2+ concentration and pH in nanopores/channels of protein crystals. J.Phys.Chem.B 122, 42, 9646-9653

20.      Roome CJ * & Kuhn B* (2018) Simultaneous dendritic voltage and calcium imaging and somatic recording from Purkinje neurons in awake mice. Nature communications  DOI: 10.1038/s41467-018-05900-3

OIST Press Release

19.      Lissek T., ...., & Hasan MT* (2017) Building Bridges through Science. NeuroView in Neuron 96(4), p.730-735

OIST Press Release

18.      Funamizu A, Kuhn B, & Doya K* (2016) Neural substrate of dynamic Bayesian inference in the cerebral cortex.   Nature Neuroscience 19, p.1682–1689

OIST Press Release


17.      Roome CJ* & Kuhn B* (2014) Chronic cranial window with access port for repeated cellular manipulations, drug application, and electrophysiology. Frontiers in Cellular Neuroscience 8:379, doi: 10.3389/fncel.2014.00379

16.       Augustinaite S, Kuhn B, Helm PJ & Heggelund P* (2014) NMDA Spike/Plateau Potentials in Dendrites of Thalamocortical Neurons.  The Journal of Neuroscience 34, 10892-10905, doi:10.1523/JNEUROSCI.1205-13.2014

Cover of The Journal of Neuroscience 34    

Cover of The Journal of Neuroscience Special Issue for Japan Neuroscience Society Meeting Attendees

Covered in AlphaGalileo and BioOptics World and SPIE Newsroom and on the OIST web page

15.         Seemann KM* & Kuhn B* (2014) Multi-photon excited luminescence of magnetic FePt core-shell nanoparticles. Biomedical Optics Express 5, 2446-2457, doi:10.1364

14.         Anwar H, Roome CJ, Nedelescu H, Chen W, Kuhn B & De Schutter E* (2014) Dendritic diameters affect the spatial variability of intracellular calcium dynamics in computer models. Frontiers in Cellular Neuroscience 8, article 168, doi:10.3389/fncel.2014.00168

13.         Huang S & Uusisaari MY* (2013) Physiological temperature during brain slicing enhances the quality of acute slice preparations.   Frontiers in Cellular Neuroscience 7, 1-8, doi:doi: 10.3389/fncel.2013.00048

Covered on the OIST web page

12.         Seemann KM*, Kiefersauer R, Jacob U & Kuhn B* (2012) Optical pH detection within a protein crystal.   J Phys Chem B 116, 9873-9881, doi:10.1021/jp2103512

Covered on the OIST web page

11.         Kuhn B, Ozden I, Lampi Y, Hasan MT & Wang SS-H* (2012) An amplified promoter system for targeted expression of calcium indicator proteins in the cerebellar cortex.   Front Neural Circuits 6, article 49, doi:10.3389/fncir.2012.00049

Covered on the OIST web page

10.         Kuhn B, Hoogland TM & Wang SS-H* (2011) Cerebellar craniotomy for in vivo calcium imaging of astrocytes.   Cold Spring Harb Protoc 10, 1224-1227, doi:10.1101/pdb.prot065805

9.         Kuhn B, Hoogland TM & Wang SS-H* (2011) Injection of recombinant adenovirus for delivery of genetically encoded calcium indicators into astrocytes of the cerebellar cortex.   Cold Spring Harb Protoc 10, 1217-1223, doi:10.1101/pdb.prot065797

8.         Hoogland TM, Kuhn B & Wang SS-H* (2011) Preferential loading of bergmann glia with synthetic acetoxymethyl calcium dyes.   Cold Spring Harb Protoc 10, 1228-1231, doi:10.1101/pdb.prot065813

7.       Granstedt AE, Kuhn B, Wang SS-H & Enquist LW* (2010) Calcium imaging of neuronal circuits in vivo using a circuit-tracing pseudorabies virus.   Cold Spring Harb Protoc 2010, pdb prot5410, doi:10.1101/pdb.prot5410

6.       Hoogland TM*, Kuhn B*, Göbel W, Huang W, Nakai J, Helmchen F, Flint J & Wang SS-H* (2009) Radially expanding transglial calcium waves in the intact cerebellum.   Proc Natl Acad Sci U S A 106, 3496-3501, doi:10.1073/pnas.0809269106

Selected for "In this issue", PNAS

5.       Granstedt AE, Szpara ML, Kuhn B, Wang SS-H & Enquist LW* (2009) Fluorescence-based monitoring of in vivo neural activity using a circuit-tracing pseudorabies virus.   PLoS One 4, e6923, doi:10.1371/journal.pone.0006923

4.       Kuhn B*, Denk W & Bruno RM* (2008) In vivo two-photon voltage-sensitive dye imaging reveals top-down control of cortical layers 1 and 2 during wakefulness.   Proc Natl Acad Sci U S A 105, 7588-7593, doi:10.1073/pnas.0802462105

Covered in "Neurobiology Select", Cell

3.       Fromherz P, Hübener G, Kuhn B & Hinner MJ (2008) ANNINE-6plus, a voltage-sensitive dye with good solubility*, strong membrane binding and high sensitivity. European biophysics journal : EBJ 37, 509-514, doi:10.1007/s00249-007-0210-y

2.       Kuhn B*, Fromherz P & Denk W (2004) High sensitivity of Stark-shift voltage-sensing dyes by one- or two-photon excitation near the red spectral edge. Biophysical journal 87, 631-639, doi:10.1529/biophysj.104.040477

1.       Kuhn B & Fromherz P* (2003) Anellated hemicyanine dyes in a neuron membrane: Molecular Stark effect and optical voltage recording.   Journal of Physical Chemistry B 107, 7903-7913, doi:Doi 10.1021/Jp0345811


Book Chapters


5.     Dorgans K, Kuhn B, & Uusisaari MY (2022) In vitro voltage imaging of subthreshold activity in inferior olive neurons with ANNINE-6plus. In: Sillitoe R.V. (eds) Measuring Cerebellar Function. Neuromethods, vol 177. Humana, New York, NY.

4.    Roome CJ & Kuhn B* (2019) Voltage imaging with ANNINE dyes and two-photon microscopy. In: Multi-photon microscopy. E. Hartveit (Editor). Book series Springer-Nature Neuromethods. doi: 10.1007/978-1-4939-9702-2 13, p. 297-334

3.    Anwar H, Roome CJ, Nedelescu H, Chen W, Kuhn B, and De Schutter E (2016) Dendritic diameters affect the spatial variability of intracellular calcium dynamics in computer models. In: Determinants of Synaptic Information Transfer: from Ca2+ Binding Proteins to Ca2+ Signaling Domains. P. Isope, C.D. Wilms, H. Schmidt (Editors). Frontiers Media SA, p. 112-125

2.    Kuhn B, Hoogland TM & Wang SS-H (2011) In vivo calcium imaging of cerebellar astrocytes with synthetic and genetic indicators.  In Imaging in Neuroscience (2nd Edition).   F. Helmchen, A. Konnerth, & R. Yuste (Editors). Cold Spring Habor Laboratory Press, p. 707-720

1.    Theer P, Kuhn B, Keusters D & Denk W (2005) Two-photon microscopy and imaging.   In Encyclopaedia of Molecular Cell Biology and Molecular Medicine. R.A. Meyers (Editor). Vol. 15,  p. 61-88




6.       Kuhn B, Picollo F, Carabelli V, & Rispoli G* (2020) Advanced real-time recordings of neuronal activity with tailored patch pipettes, diamond multi-electrode arrays, and electrochromic voltage-sensitive dyes. Pflügers Archiv - European Journal of Physiology.

5.       Roome CJ* & Kuhn B* (2019) Voltage imaging with ANNINE dyes and two-photon microscopy of Purkinje dendrites in awake mice. Neuroscience Research Volume 152: 15-24, doi: 10.1016/j.neures.2019.11.007 

4.       Kuhn B* & Roome CJ (2019) Primer to voltage imaging with ANNINE dyes and two-photon microscopy. Front. Cell. Neurosci. 13:321. doi: 10.3389/fncel.2019.00321

3.       Hoogland TM & Kuhn B (2010) Recent developments in the understanding of astrocyte function in the cerebellum in vivo.   Cerebellum 9, 264-271, doi: 10.1007/s12311-009-0139-z

2.       Hoogland TM, Civillico EF & Kuhn B (2007) Molecular layer interneurons relay cerebellar cortical activity to bergmann glial cells.   Journal of Neuroscience 27, 11167-11169, doi:10.1523/Jneurosci.3597-07.2007 

1.       Theer P, Kuhn B, Keusters D, & Denk W (2006) Two‐photon microscopy and imaging.  Reviews in Cell Biology and Molecular Medicine, Wiley‐VCH Verlag GmbH & Co. KGaA      full text pdf here




1.      Tominaga T & Kuhn B (2020) Cutting-edge brain research from a biophysical perspective: symposium synopsis of Session 1SCP at BSJ2019 in Miyazaki, Kyushu, Japan. Biophysical Reviews,




2.      Kuhn B & Roome CJ  (2014)  Chronic Cranial Window Allowing Drug Application and Electrophysiology.

1.      Kuhn B, Hübener G, Fromherz P & Denk W  (2004)  Optimized determination of voltage-changes using a voltage-sensitive dye.




1.      Kuhn B (2019) Optronics p. 98-103 (Japanese).


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