Publications

Preprints

Zimmermann MJY^§, Chagas AM, Bartel P, Pop S, Prieto Godino LL, Baden T. LED Zappelin’: An open source LED controller for arbitrary spectrum visual stimulation and optogenetics during 2-photon imaging. bioRxiv doi: https://doi.org/10.1101/2020.03.10.986000. direct link. pdf.

Janiak FK^§, Bartel P, Bale M, Yoshimatsu T, Komulainen EH, Zhou M, Staras K, Prieto Godino LL, Euler T, Maravall M, Baden T^§. Divergent excitation two photon microscopy for 3D random access mesoscale imaging at single cell resolution. bioRxiv doi: https:/doi.org/10.1101/821405. direct link. pdf.

Dehmelt FA, Meier R, Hinz J, Yoshimatsu T, Simacek CA, Wang K, Baden T, Arrenberg A^§. Spherical arena reveals optokinetic response tuning to stimulus location, size and frequency across entire visual field of larval zebrafish. bioRxiv doi: https://doi.org/10.1101/754408. direct link. pdf.

Yoshimatsu T^§, Schroeder C, Nevala NE, Berens P, Baden T^§. Fovea-like Photoreceptor Specializations Underlies Single UV Cone Driven Prey-Capture Behaviour in Zebrafish. Neuron (107):1-18. direct link. (bioRxiv version).  pdf.

Zhou M*, Bear J*, Roberts PA, Janiak FK, Semmelhack J, Yoshimatsu T, Baden T^§. What the Zebrafish’s Eye Tells the Zebrafish’s Brain: Retinal Ganglion Cells for Prey Capture and Colour Vision. bioRxiv doi: https/doi.org/10.1101/2020.01.31.927087. direct link. pdf. (& Current Biology, accepted)

Chagas AM^§, Molloy JC, Prieto Godino LL, Baden T. Leveraging Open Hardware to Alleviate the Burden of COVID-19 on Global Health Systems. PLoS Biology pbio.3000730. direct link. (preprints.org version). pdf.

Seifert M^§, Baden T, Osorio D. The Retinal Basis of Vision in Chicken. Sem Cell Dev Biol. (in press). direct link. (preprints.org version).  pdf.

Ran Y*, Huang Z*, Baden T, Schubert T, Baayen H, Berens P^#, Franke K^#, Euler T^#§. Type-specific dendritic integration in mouse retinal ganglion cells. Nature Communications 11:2001. (bioRxiv version). direct link. pdf.

Baden T^§, Euler T, Berens P. Understanding the retinal basis of vision across species. Nature Reviews Neuroscience,  doi:10.1038/s41583-019-0242-1. direct link.  pdf.

Euler T^§, Franke K, Baden T. Studying a light sensor with light: multiphoton imaging in the retina. In Multiphoton Microscopy, Ed. Espen Hartveit, Neuromethods book series, NM (148), Springer Nature. pp 225-250. (preprints.org version). direct link. pdf .

Franke K*, Chagas AM*, Zhao Z, Zimmermann MJY, Bartel P, Qiu Y, Szatko K, Baden T, Euler T^§. An arbitrary-spectrum spatial visual stimulator for vision research. eLife 8:e48779. (bioRxiv version). direct link. pdf.

Vlasits A^§ and Baden T^§. Motion Vision: A new Mechanism in the Mammalian Retina. Current Biology 29(19):933-935. direct link. pdf.

Nevala NE^§ and Baden T^§. A low-cost hyperspectral scanner for natural imaging above and under water. Scientific Reports (9) 10799. (biorXiv version). direct link. pdf.

Baden T^§ and Osorio D^§. The Retinal Basis of Vertebrate Color Vision. Annual Review of Vision Science (5). (preprints.org version). direct link. pdf. F1000 recommendation by G Fain.

Maina MB^§, Yunusa MG, Bukar AM, Ahmad U, Salihu AT, Ibrahim HA, Muhammad A, Hamidu SK, Yaro AU, Awadelkareem MA, and Baden T. African Neuroscience on the Global Stage: Nigeria as a Model. Europ. J Neurosci, doi 10.1111/ejn.14372. (AfricArXiv version). pdf.

2018

Chagas AM (2018). Haves and have nots must find a better way: the case for open scientific hardware. PloS Biology doi.org/10.1371/journal.pbio.3000014. direct link.

Zimmermann MJY*, Nevala NE*, Yoshimatsu T*, Osorio D, Nilsson DE, Berens P, Baden T^§. Zebrafish differentially process colour across visual space to match natural scenes. Current Biology 28(1-15). direct link. (bioRxiv version). pdf.

2017

Chagas AM^§, Prieto Godino LL, Arrenberg AB and Baden T^§. The 100 Euro Lab: A 3-D Printable Open Source Platform For Fluorescence Microscopy, Optogenetics And Accurate Temperature Control During Behaviour Of Zebrafish, Drosophila And C. elegans. PLoS Biology. direct link. (bioRxiv version). pdf.

Forman CJ^§, Tomes H, Mbobo B, Burman, RJ, Jacobs M, Baden T^§, Raimondo JV^§. Openspritzer: an open hardware pressure ejection system for reliably delivering picolitre volumes. Scientific Reports.  7:2188. direct link. (bioRxiv version). pdf.

Franke K and Baden T. General features of inhibition in the inner retina. Journal of Physiology doi 10.1113/JP273648; direct link.pdf.

Baden T, Schaeffel F and Berens P. Visual Neuroscience: A Retinal Ganglion Cell to Report Image Focus? Current Biology; http://dx.doi.org/10.1016/j.cub.2016.12.022. direct link. pdf.

Franke K*, Berens P*, Schubert T, Bethge M, Euler T^§, Baden T^§. Inhibition decorrelates visual feature representations in the inner retina. Nature; doi: 10.1038/nature21394. pdf. direct link. (bioRxiv version). News and Views by Dick Masland.

2016

Baden T and Euler T. Retinal Physiology: Non-Bipolar-Cell Excitatory Drive in the Inner Retina. Current Biology26(15):706:8. pdf. direct link.

Euler T and Baden T. Computational Neuroscience: Species Specific Motion Detectors. Nature doi:10.1038/nature18454. pdf.direct link.

Theis L, Berens P^§ , Froudarakis E, Reimer J, Roman Roson M, Baden T, Euler T, Tolias AS, Bethge M. Benchmarking spike rate inference in population calcium imaging. Neuron 90(3):471-82. pdf, direct link. (bioRxiv version here).

Baden T*, Berens *P, Franke K*, Roman Roson M, Bethge M, Euler T^§. The functional diversity of mouse retinal ganglion cells. Nature. doi:10.1038/nature16468.pdf; direct link. F1000 recommendation by Dick Masland.

2015

Kulkarni MM, Schubert T, Baden T, Wissinger B, Euler T, Paquet-Durand F^§. Imaging Ca2+ dynamics in cone photoreceptor axon terminals of the mouse retina”. Journal of Visualized Experiments (99) doi 10.3791/52588; direct Link.

Baden T^§, Chagas AM, Gage G, Marzullo T, Prieto Godino LL, Euler T. Open Labware – 3D printing your own lab equipment. PLoS Biology. 13(3):e1002086.doi:10.1371/journal.pbio.1002086.  pdf; direct link.

2014

Baden T*, Nikolaev A*, Esposti F, Dreosti E, Odermatt B and Lagnado L^§. (2014). A synaptic mechanism for temporal filtering of visual signals. PLoS Biology. 12(10): e1001972. doi:10.1371/journal.pbio.1001972. pdf Supplementary [1] [2] [3] [4] [Primer by Suh & Baccus].

Euler T^§, Haverkamp S, Schubert T and Baden T. (2014). Retinal Bipolar cells: Elementary building blocks of vision. Nature Reviews Neuroscience. 15:507-519. pdf Suppementary [1] [2].

2013

Baden T*, Schubert T*, Chang L, Wei T, Zaichuk M, Wissinger B and Euler T^§. (2013). A Tale of Two Retinal Domains: Near Optimal Sampling of Achromatic Contrasts in Natural Scenes Through Asymmetric Photoreceptor Distribution. Neuron80: 1206-1217. pdf Supplementary [1].

Yusuf S, Baden T and Prieto Godino LL. (2013). Bridging the Gap: Establishing the Necessary Infrastructure and Knowledge for Teaching and Research in Neuroscience in Africa. Metabolic Brain Disease. DOI 10.1007/s11011-013-9443-x. pdf.

Baden T and Euler T. (2013). Early Vision: Where (Some of) the Magic Happens. Current Biology23(24):1096-1098. pdf.

Baden T^§, Euler T, Weckström M and Lagnado L. (2013). Spikes and Ribbon Synapses in Early Vision. Trends in Neurosciences 36(8):480-8. pdf.

Baden T^§, Berens P, Bethge M and Euler T. (2013). Spikes in Mammalian Bipolar Cells Support Temporal Layering of the Inner Retina. Current Biology 23(1), 48-52 pdf Supplementary [1].

2012

Auferkorte ON, Baden T, Kaushalya SK, Zabouri N, Rudolph U, Haverkamp S and Euler T^§. (2012). GABA(A) receptors containing the a2 subunit are critical for direction-selective inhibition in the retina, PLoS One, 7(4):e35109. pdf.

2011

Baden T, Esposti F, Nikolaev A and Lagnado L^§. (2011). Spikes in retinal bipolar cells code visual stimuli with millisecond precision. Current Biology(21): 1-11. pdf Supplementary [1].

Dreosti E*, Esposti F*, Baden T and Lagnado L^§. (2011). In vivo evidence that retinal bipolar cells generate spikes modulated by light. Nature Neuroscience14(8): 951-2. pdf Supplementary [1].

Cederlund ML, Morrissey ME, Baden T, Scholz D, Vendrell V, Lagnado L, Connaughton VP and Kennedy BN^§. (2011). Zebrafish Tg(7.2mab21l2:EGFP) Transgenics reveal a Unique Population of Retinal Amacrine Cells. Invest Ophthalmol Vis Sci. 52(3):1613-21. pdf.

before 2010

Baden T and Hedwig B^§. (2010). Primary Afferent Depolarisation and Frequency Processing in Auditory Afferents. Journal of Neuroscience 30(44): 14862-9. pdf.

Baden T and Hedwig B^§. (2009). Dynamics of free intracellular Ca2+ during synaptic and spike activity of cricket tibial motoneurons. European Journal of Neuroscience. 29(7):1357-68. pdf.

Baden T and Hedwig B^§. (2008). Front leg movements and tibial motoneurons underlying auditory steering in the cricket (Gryllus bimaculatus deGeer). Journal of Experimental Biology. 211(13):2123-33. pdf.

Baden T and Hedwig B^§. (2007). Neurite-specific Ca2+ dynamics underlying sound processing in an auditory interneurone. Developmental Neurobiology 67(1):68-80. pdf.

Becker AJ, Klein H, Baden T, Aigner L, Normann S, Elger CE, Schramm J, Wiestler OD and Blumcke I^§. (2002). Mutational and expression analysis of the reelin pathway components CDK5 and doublecortin in gangliogliomas. Acta Neuropathologica. 104(4):403-8. pdf.

Becker AJ, Urbach H, Scheffler B, Baden T, Normann S, Lahl R, Pannek HW, Tuxhorn I, Elger CE, Schramm J, Wiestler OD and Blumcke I^§. (2002). Focal cortical dysplasia of Taylor’s balloon cell type: mutational analysis of the TSC1 gene indicates a pathogenic relationship to tuberous sclerosis. Annuals of Neurology. 52(1):29-37. pdf.

Other publications / pieces of writing

Nature / Eppendorf Prize Interview and media. Link. Nature Podcast. Interview published in Nature 2017.

Maia Chagas A and Baden T (2015). Open Source Toolkit. PLoS Blogs. link

Baden T.  Habilitation thesis. Nonlinearities in early vision. pdf

Baden T, et al. (2013). Neurowissenschaften in Afrika – Kooperationen und Perspektiven. Neuroforum. 2:73-74. pdf

Baden T, Zorovic M and Hedwig B. (2008). Motorische Kontrolle der akustischen Orientierung von Grillen. Neuroforum 4:267-273

Baden T. (2008). PhD thesis. Activity Patterns and Calcium Dynamics of Sensory Interneurons and Motoneurons of the Cricket Auditory Pathway. (Supervisor: B Hedwig, Department of Zoology, University of Cambridge). pdf

Baden T. Analysing the neuronal computer (2007). ßluesci 8:1. doc