Publications

2017

• Michael Weber, Nico Scherf, Alexander M Meyer, Daniela Panáková, Peter Kohl, Jan Huisken, Cell-accurate optical mapping across the entire developing heart., eLife 6 (2017), doi:10.7554/eLife.28307

• Rory M Power, Jan Huisken, Intraoperative histology: Lightning 3D histopathology., Nat Biomedical Engineering, 1 0101 (2017), doi:10.1038/s41551-017-0101

• Rory M Power, Jan Huisken, A guide to light-sheet fluorescence microscopy for multiscale imaging., Nat Methods, 14(4) 360-373 (2017), doi:10.1038/nmeth.4224

• Wiebke Jahr, Spectrally resolved, three-dimensional widefield microscopy, Ph.D. Thesis, Technische Universität Dresden, Dresden, Germany (2017)

• Stephan Daetwyler, Systematic Analysis of Vascular Patterning in Zebrafish, Ph.D. Thesis, Technische Universität Dresden, Dresden, Germany (2017)

• Robert Bensch, Nico Scherf, Jan Huisken, Thomas Brox, Olaf Ronneberger, Spatiotemporal Deformable Prototypes for Motion Anomaly Detection, Int J Comput Vis, 122 502-523 (2017), doi:10.1007/s11263-016-0934-1

2016

• Benjamin Schmid, Wiebke Jahr, Michael Weber, Jan Huisken, Software Framework for Controlling Unsupervised Scientific Instruments., PLoS ONE, 11(8) Art. No. e0161671 (2016), doi.org/10.1371/journal.pone.0161671

• Stephan Daetwyler, Jan Huisken, Fast Fluorescence Microscopy with Light Sheets., Biol. Bull., 231(1) 14-25 (2016), DOI: 10.1086/689588

• Michaela Mickoleit, Imaging and Reconstructing the beating Heart and its Morphogenesis, Ph.D. Thesis,Technische Universität Dresden, Dresden, Germany (2016)

• Gopi Shah, Pan-embryo Cell Dynamics – Multidimensional imaging uncovers the blueprint of zebrafish development, Ph.D. Thesis,Technische Universität Dresden, Dresden, Germany (2016)

• Konstantin Thierbach, Gopi Shah, Ingmar Glauche, Jan Huisken, Ingo Roeder, Nico Scherf, Biology-inspired visualization of morphogenetic motion in the zebrafish endoderm, In: 2016 IEEE 13th International Symposium on Biomedical Imaging (ISBI) (2016), Piscataway, N.J., IEEE (2016), 925-929

• Wiebke Jahr, Benjamin Schmid, Michael Weber, Jan Huisken, eduSPIM: Light Sheet Microscopy in the Museum., PLoS ONE, 11(8) Art. No. e0161402 (2016), doi.org/10.1371/journal.pone.0161402

2015

• Michael Weber, Jan Huisken, In vivo imaging of cardiac development and function in zebrafish using light sheet microscopy., Swiss Med Wkly, 145 Art. No. w14227 (2015), DOI: 10.4414/smw.2015.14227

• Claire Lye, Guy Blanchard, Huw Naylor, Leila Muresan, Jan Huisken, Richard J Adams, Benedicte Sanson, Mechanical Coupling between Endoderm Invagination and Axis Extension in Drosophila., PLoS Biol, 13(11) Art. No. e1002292 (2015), doi.org/10.1371/journal.pbio.1002292

• Benjamin Schmid, Jan Huisken, Real-time multi-view deconvolution., Bioinformatics, 31(20) 3398-3400 (2015), https://doi.org/10.1093/bioinformatics/btv387

• Wiebke Jahr, Benjamin Schmid, Christopher Schmied, Florian Fahrbach, Jan Huisken, Hyperspectral light sheet microscopy., Nat Commun, 6 Art. No. 7990 (2015), doi:10.1038/ncomms899

• Nico Scherf, Jan Huisken, The smart and gentle microscope., Nat Biotechnol, 33(8) 815-818 (2015), doi:10.1038/nbt.3310

• Michael Weber, All-optical 4D in vivo monitoring and manipulation of zebrafish cardiac conduction, Ph.D. Thesis,Technische Universität Dresden, Dresden, Germany (2015)

• Anna Lenard, Stephan Daetwyler, Charles Betz, Elin Ellertsdottir, Heinz-Georg Belting, Jan Huisken, Markus Affolter, Endothelial Cell Self-fusion during Vascular Pruning., PLoS Biol, 13(4) Art. No. e1002126 (2015, https://doi.org/10.1371/journal.pbio.1002126

• Andrea Bassi, Benjamin Schmid, Jan Huisken, Optical tomography complements light sheet microscopy for in toto imaging of zebrafish development., Development, 142(5) 1016-1020 (2015), doi: 10.1242/dev.116970

• Marc Renz, Cécile Otten, Eva Faurobert, Franziska Rudolph, Yu Zhu, Gwénola Boulday, Johan Duchene, Michaela Mickoleit, Ann-Christin Dietrich, Caroline Ramspacher, Emily Steed, Sandra Manet-Dupé, Alexander Benz, David Hassel, Julien Vermot, Jan Huisken, Elisabeth Tournier-Lasserve, Ute Felbor, Ulrich Sure, Corinne Albiges-Rizo, Salim Abdelilah-Seyfried, Regulation of β1 Integrin-Klf2-Mediated Angiogenesis by CCM Proteins., Dev Cell, 32(2) 181-190 (2015), https://doi.org/10.1016/j.devcel.2014.12.016

• Emmanuel G. Reynaud, Jan Peychl, Jan Huisken, Pavel Tomancak, Guide to light-sheet microscopy for adventurous biologists., Nat Methods, 12(1) 30-34 (2015), doi:10.1038/nmeth.3222

2014

• Jan Philipp Junker, Emily S. Noël, Victor Guryev, Kevin A Peterson, Gopi Shah, Jan Huisken, Andrew P. McMahon, Eugene Berezikov, Jeroen Bakkers, Alexander van Oudenaarden, Genome-wide RNA Tomography in the Zebrafish Embryo., Cell, 159(3) 662-675 (2014), DOI: http://dx.doi.org/10.1016/j.cell.2014.09.038

• Michaela Mickoleit, Benjamin Schmid, Michael Weber, Florian Fahrbach, Sonja Hombach, Sven Reischauer, Jan Huisken, High-resolution reconstruction of the beating zebrafish heart., Nat Methods, 11(9) 919-922 (2014) , doi:10.1038/nmeth.3037

• Michael Weber, Michaela Mickoleit, Jan Huisken, Multilayer mounting for long-term light sheet microscopy of zebrafish, J Vis Exp, (84) Art. No. e51119 (2014), doi:10.3791/51119

• Ashley L Alvers, Sean Ryan, Paul J Scherz, Jan Huisken, Michel Bagnat, Single continuous lumen formation in the zebrafish gut is mediated by smoothened-dependent tissue remodeling., Development, 141(5) 1110-1119 (2014) , doi: 10.1242/dev.100313

• Michael Weber, Michaela Mickoleit, Jan Huisken, Light sheet microscopy., Methods Cell Biol, 123 193-215 (2014), https://doi.org/10.1016/B978-0-12-420138-5.00011-2

2013

• Florian Fahrbach, Fabian F Voigt, Benjamin Schmid, Fritjof Helmchen, Jan Huisken, Rapid 3D light-sheet microscopy with a tunable lens., Opt express, 21(18) 21010-21026 (2013), https://doi.org/10.1364/OE.21.021010

• Benjamin Schmid, Gopi Shah, Nico Scherf, Michael Weber, Konstantin Thierbach, Claudia Campos, Ingo Roeder, Pia Aanstad, Jan Huisken, High-speed panoramic light-sheet microscopy reveals global endodermal cell dynamics., Nat Commun, 4 Art. No. 2207 (2013), doi:10.1038/ncomms3207

• Peter Gabriel Pitrone, Johannes Schindelin, Luke Stuyvenberg, Stephan Preibisch, Michael Weber, Kevin W Eliceiri, Jan Huisken, Pavel Tomancak, OpenSPIM: an open access light sheet microscopy platform, Nat Methods, 10(7) 598-599 (2013), doi:10.1038/nmeth.2507

2012

• Robert Opitz, Emilie Maquet, Jan Huisken, Francesco Antonica, Achim Trubiroha, Gaëlle Pottier, Veerle Janssens, Sabine Costagliola, Transgenic zebrafish illuminate the dynamics of thyroid morphogenesis and its relationship to cardiovascular development., Dev Biol, 372(2) 203-216 (2012), https://doi.org/10.1016/j.ydbio.2012.09.011

• Katharine Mellman, Jan Huisken, Colin Dinsmore, Cornelia Hoppe, Didier Y.R. Stainier, Fibrillin-2b regulates endocardial morphogenesis in zebrafish., Dev Biol, 372(1) 111-119 (2012), https://doi.org/10.1016/j.ydbio.2012.07.015

• Anna Kaufmann, Michaela Mickoleit, Michael Weber, Jan Huisken, Multilayer mounting enables long-term imaging of zebrafish development in a light sheet microscope., Development, 139(17) 3242-3247 (2012), doi: 10.1242/dev.082586

• Michael Weber, Jan Huisken, Omnidirectional microscopy., Nat Methods, 9(7) 656-657 (2012), doi:10.1038/nmeth.2022

• Johannes Schindelin, Ignacio Arganda-Carreras, Erwin Frise, Verena Kaynig, Mark Longair, Tobias Pietzsch, Stephan Preibisch, Curtis Rueden, Stephan Saalfeld, Benjamin Schmid, Jean-Yves Tinevez, Dan White, Volker Hartenstein, Kevin W Eliceiri, Pavel Tomancak, Albert Cardona, Fiji: an open-source platform for biological-image analysis., Nat Methods, 9(7) 676-682 (2012), doi:10.1038/nmeth.2019

• Bettina C Kirchmaier, Kar Lai Poon, Thorsten Schwerte, Jan Huisken, Christoph Winkler, Benno Jungblut, Didier Y.R. Stainier, Thomas Brand, The Popeye domain containing 2 (popdc2) gene in zebrafish is required for heart and skeletal muscle development., Dev Biol, 363(2) 438-450 (2012), https://doi.org/10.1016/j.ydbio.2012.01.015

• Jan Huisken, Slicing embryos gently with laser light sheets., Bioessays, 34(5) 406-411 (2012), DOI: 10.1002/bies.201100120

2011

• Benjamin Schmid, Charlotte Helfrich-Förster, Taishi Yoshii, A new ImageJ plug-in “ActogramJ” for chronobiological analyses., J Biol Rhythms, 26(5) 464-467 (2011), https://doi.org/10.1177/0748730411414264

• Michael Weber, Jan Huisken, Light sheet microscopy for real-time developmental biology., Curr Opin Genet Dev, 21(5) 566-572 (2011), https://doi.org/10.1016/j.gde.2011.09.009

• Mohammed Mahamdeh, Citlali Perez Campos, Erik Schäffer, Under-filling trapping objectives optimizes the use of the available laser power in optical tweezers., Opt express, 19(12) 11759-11768 (2011), https://doi.org/10.1364/OE.19.011759

2010

• Aristides B. Arrenberg, Didier Y.R. Stainier, Herwig Baier, Jan Huisken, Optogenetic control of cardiac function., Science, 330(6006) 971-974 (2010), DOI: 10.1126/science.1195929

• Jiandong Liu, Michael Bressan, David Hassel, Jan Huisken, David Staudt, Kazu Kikuchi, Kenneth D Poss, Takashi Mikawa, Didier Y.R. Stainier, A dual role for ErbB2 signaling in cardiac trabeculation., Development, 137(22) 3867-3875 (2010), doi: 10.1242/dev.053736

• Michel Bagnat, Adam Navis, Sara Herbstreith, Koroboshka Brand-Arzamendi, Silvia Curado, Sherif Gabriel, Keith Mostov, Jan Huisken, Didier Y.R. Stainier, Cse1l Is a Negative Regulator of CFTR-Dependent Fluid Secretion., Curr Biol, 20(20) 1840-1845 (2010), doi: 10.1016/j.cub.2010.09.012

2009

• Shane P Herbert, Jan Huisken, Tyson N Kim, Morri E Feldman, Benjamin T Houseman, Rong A Wang, Kevan M Shokat, Didier Y.R. Stainier, Arterial-venous segregation by selective cell sprouting: an alternative mode of blood vessel formation., Science, 326(5950) 294-298 (2009), doi: 10.1126/science.1178577

• Pia Aanstad, Nicole Santos, Kevin C Corbit, Paul J Scherz, Le A Trinh, Willi Salvenmoser, Jan Huisken, Jeremy F Reiter, Didier Y.R. Stainier, The extracellular domain of Smoothened regulates ciliary localization and is required for high-level Hh signaling., Curr Biol, 19(12) 1034-1039 (2009) , doi: 10.1016/j.cub.2009.04.053

• Jan Huisken, Didier Y.R. Stainier, Selective plane illumination microscopy techniques in developmental biology., Development, 136(12) 1963-1975 (2009), doi: 10.1242/dev.022426

• Wiebke Herzog, Katja Müller, Jan Huisken, Didier Y.R. Stainier, Genetic evidence for a noncanonical function of seryl-tRNA synthetase in vascular development., Circ Res, 104(11) 1260-1266 (2009), doi: 10.1161/CIRCRESAHA.108.191718

2008

• Chantilly Munson, Jan Huisken, Nana Bit-Avragim, Taiyi Kuo, P D Dong, Elke A Ober, Heather Verkade, Salim Abdelilah-Seyfried, Didier Y.R. Stainier, Regulation of neurocoel morphogenesis by Pard6 gamma b., Dev Biol, 324(1) 41-54 (2008), https://doi.org/10.1016/j.ydbio.2008.08.033

• Chong Hyun Shin, Won-Suk Chung, Sung-Kook Hong, Elke A Ober, Heather Verkade, Holly A Field, Jan Huisken, Didier Y.R. Stainier, Multiple roles for Med12 in vertebrate endoderm development., Dev Biol, 317(2) 467-479 (2008), doi: 10.1016/j.ydbio.2008.02.031

• Neil C Chi, Robin M Shaw, Benno Jungblut, Jan Huisken, Tania Ferrer, Rima Arnaout, Ian Scott, Dimitris Beis, Tong Xiao, Herwig Baier, Lily Y Jan, Martin Tristani-Firouzi, Didier Y.R. Stainier, Genetic and physiologic dissection of the vertebrate cardiac conduction system., PLoS Biol, 6(5) 109-109 (2008), https://doi.org/10.1371/journal.pbio.0060109

• Paul J Scherz, Jan Huisken, Pankaj Sahai-Hernandez, Didier Y.R. Stainier, High-speed imaging of developing heart valves reveals interplay of morphogenesis and function., Development, 135(6) 1179-1187 (2008), doi: 10.1242/dev.010694

2007

• Jan Huisken, Didier Y.R. Stainier, Even fluorescence excitation by multidirectional selective plane illumination microscopy (mSPIM)., Opt Lett, 32(17) 2608-2610 (2007), https://doi.org/10.1364/OL.32.002608

• Rima Arnaout, Tania Ferrer, Jan Huisken, Kenneth Spitzer, Didier Y.R. Stainier, Martin Tristani-Firouzi, Neil C Chi, Zebrafish model for human long QT syndrome., Proc Natl Acad Sci U.S.A., 104(27) 11316-11321 (2007), doi: 10.1073/pnas.0702724104

• Jim Swoger, Peter Verveer, Klaus Greger, Jan Huisken, Ernst H K Stelzer, Multi-view image fusion improves resolution in three-dimensional microscopy., Opt express, 15(13) 8029-8042 (2007), https://doi.org/10.1364/OE.15.008029

• Jan Huisken, Jim Swoger, Ernst H K Stelzer, Three-dimensional optical manipulation using four collimated intersecting laser beams., Opt express, 15(8) 4921-4928 (2007), https://doi.org/10.1364/OE.15.004921

2004

• Jan Huisken, Jim Swoger, Filippo Del Bene, Jochen Wittbrodt, Ernst H K Stelzer, Optical sectioning deep inside live embryos by selective plane illumination microscopy., Science, 305(5686) 1007-1009 (2004), DOI: 10.1126/science.1100035

2003

• Jim Swoger, Jan Huisken, Ernst H K Stelzer, Multiple imaging axis microscopy improves resolution for thick-sample applications., Opt Lett, 28(18) 1654-1656 (2003), https://doi.org/10.1364/OL.28.001654

2002

• Jim Swoger, Manuel Martínez-Corral, Jan Huisken, Ernst H K Stelzer, Optical scanning holography as a technique for high-resolution three-dimensional biological microscopy., J Opt Soc Am A Opt Image Sci Vis, 19(9) 1910-1918 (2002), https://doi.org/10.1364/JOSAA.19.001910

• Jan Huisken, Ernst H K Stelzer, Optical levitation of absorbing particles with a nominally Gaussian laser beam., Opt Lett, 27(14) 1223-1225 (2002), https://doi.org/10.1364/OL.27.001223