Article

Operating and biocontainment procedures of a facility for laboratory mice with a natural microbiome: immunophenotyping procedure.
Drude, N., Diederich, K., Duerr, C.U., Haase, N. ORCID: https://orcid.org/0000-0003-0727-1738, Harms, C., Heppner, F., Jendrach, M., Kahnau, P., Kolesnichenko, M. ORCID: https://orcid.org/0000-0001-7366-9061, Lewejohann, L., Kurreck, C., Lohan, A., Mall, M.A., Müller, D. ORCID: https://orcid.org/0000-0003-3650-5644, Nagel-Riedasch, S., Opitz, B., Schaupp, L., Schönfelder, G., Weber, A., Willimsky, G. ORCID: https://orcid.org/0000-0002-9693-948X, Zang, Y., Rosshart, S.P., Diefenbach, A. and Jordan, S.
Journal of Visualized Experiments (214): e67100. 13 December 2024

Quantification of microglial engulfment of synaptic material using flow cytometry.
Ugursu, B. ORCID: https://orcid.org/0000-0002-2488-4141 and Wolf, S.A. ORCID: https://orcid.org/0000-0003-0922-8418
Journal of Visualized Experiments (207) 31 May 2024

Generation and downstream analysis of single-cell and single-nuclei transcriptomes in brain organoids.
Wandres, M., Aigner, D. ORCID: https://orcid.org/0009-0001-0489-1010, Kastelic, N., Boltengagen, A. ORCID: https://orcid.org/0000-0002-8356-9766, Rybak-Wolf, A. ORCID: https://orcid.org/0000-0002-1192-5290 and Rajewsky, N. ORCID: https://orcid.org/0000-0002-4785-4332
Journal of Visualized Experiments (205): e66225. 29 March 2024

Simultaneous imaging and flow-cytometry-based detection of multiple fluorescent senescence markers in therapy-induced senescent cancer cells.
Dovjak, E., Mairhofer, M., Wöß, C., Qi, J., Fan, D.N.Y. ORCID: https://orcid.org/0000-0001-6826-7076, Schmitt, C.A. ORCID: https://orcid.org/0000-0002-4731-2226 and Yu, Y.
Journal of Visualized Experiments (185): e63973. 12 July 2022

Dual-color fluorescence cross-correlation spectroscopy to study protein-protein interaction and protein dynamics in live cells.
Hemmen, K., Choudhury, S., Friedrich, M., Balkenhol, J., Knote, F., Lohse, M.J. ORCID: https://orcid.org/0000-0002-0599-3510 and Heinze, K.G.
Journal of Visualized Experiments 178 : e62954. 11 December 2021

Automated two-dimensional spatiotemporal analysis of mobile single-molecule FRET probes.
Schrangl, L., Göhring, J., Kellner, F., Huppa, J.B. ORCID: https://orcid.org/0000-0003-2634-8198 and Schütz, G.J.
Journal of Visualized Experiments 177 : e63124. 23 November 2021

Nuclei isolation from adult mouse kidney for single-nucleus RNA-sequencing.
Leiz, J. ORCID: https://orcid.org/0000-0002-6531-7047, Hinze, C. ORCID: https://orcid.org/0000-0003-2526-1621, Boltengagen, A. ORCID: https://orcid.org/0000-0002-8356-9766, Braeuning, C. ORCID: https://orcid.org/0009-0007-1439-9920, Kocks, C. ORCID: https://orcid.org/0000-0003-1749-3334, Rajewsky, N. ORCID: https://orcid.org/0000-0002-4785-4332 and Schmidt-Ott, K.M. ORCID: https://orcid.org/0000-0002-7700-7142
Journal of Visualized Experiments (175): e62901. September 2021

Generation of human brain organoids for mitochondrial disease modeling.
Le, S., Petersilie, L., Inak, G., Menacho-Pando, C., Kafitz, K.W., Rybak-Wolf, A. ORCID: https://orcid.org/0000-0002-1192-5290, Rajewsky, N. ORCID: https://orcid.org/0000-0002-4785-4332, Rose, C.R. and Prigione, A. ORCID: https://orcid.org/0000-0001-9457-1952
Journal of Visualized Experiments (172): e62756. 21 June 2021

Isolation, culture, and genetic engineering of mammalian primary pigment epithelial cells for non-viral gene therapy.
Bascuas, T., Kropp, M., Harmening, N., Wong, B.M., Johnen, S., Izsvák, Z. ORCID: https://orcid.org/0000-0002-2053-2384 and Thumann, G.
Journal of Visualized Experiments (168): e62145. 26 February 2021

Magnetic resonance imaging of multiple sclerosis at 7.0 Tesla.
Waiczies, S. ORCID: https://orcid.org/0000-0002-9916-9572, Els, A., Kuchling, J. ORCID: https://orcid.org/0000-0002-7981-2073, Markenroth Bloch, K., Pankowska, A., Waiczies, H. ORCID: https://orcid.org/0000-0001-6651-4790, Herrmann, C. ORCID: https://orcid.org/0000-0002-5868-472X, Chien, C. ORCID: https://orcid.org/0000-0001-8280-9513, Finke, C., Paul, F. ORCID: https://orcid.org/0000-0002-6378-0070 and Niendorf, T. ORCID: https://orcid.org/0000-0001-7584-6527
Journal of Visualized Experiments (168): e62142. 19 February 2021

Electroporation-based genetic modification of primary human pigment epithelial cells using the Sleeping Beauty transposon system.
Johnen, S., Harmening, N., Marie, C., Scherman, D., Izsvák, Z. ORCID: https://orcid.org/0000-0002-2053-2384, Ivics, Z. ORCID: https://orcid.org/0000-0002-7803-6658, Walter, P. and Thumann, G.
Journal of Visualized Experiments (168): e61987. February 2021

Induction and analysis of oxidative stress in Sleeping Beauty transposon-transfected human retinal pigment epithelial cells.
Bascuas, T., Kropp, M., Harmening, N., Asrih, M., Izsvák, Z. ORCID: https://orcid.org/0000-0002-2053-2384 and Thumann, G.
Journal of Visualized Experiments 2020 (166): e61957. 11 December 2020

Cardiac magnetic resonance imaging at 7 Tesla.
Stäb, D., Al Najjar, A., O'Brien, K., Strugnell, W., Richer, J., Rieger, J., Niendorf, T. ORCID: https://orcid.org/0000-0001-7584-6527 and Barth, M.
Journal of Visualized Experiments (143): e55853. 6 January 2019

Candidate gene testing in clinical cohort studies with multiplexed genotyping and mass spectrometry.
Ashley, S.E. ORCID: https://orcid.org/0000-0001-9973-9742, Meyer, B.A., Ellis, J.A. and Martino, D.J.
Journal of Visualized Experiments (136): e57601. 21 June 2018

Application of RNAi and heat-shock-induced transcription factor expression to reprogram germ cells to neurons in C. elegans.
Kolundzic, E. ORCID: https://orcid.org/0000-0002-7811-3174, Seelk, S. ORCID: https://orcid.org/0000-0002-3525-8859 and Tursun, B. ORCID: https://orcid.org/0000-0001-7293-8629
Journal of Visualized Experiments (131): e56889. 1 January 2018

Chromatin immunoprecipitation (ChIP) protocol for low-abundance embryonic samples.
Rehimi, R., Bartusel, M., Solinas, F., Altmüller, J. ORCID: https://orcid.org/0000-0003-4372-1521 and Rada-Iglesias, A.
Journal of Visualized Experiments (126): e56186. 29 August 2017

Measurement of vibration detection threshold and tactile spatial acuity in human subjects.
Moshourab, R. ORCID: https://orcid.org/0000-0002-9180-8472, Frenzel, H., Lechner, S. ORCID: https://orcid.org/0000-0001-9402-9127, Haseleu, J. ORCID: https://orcid.org/0000-0002-6827-074X, Bégay, V. ORCID: https://orcid.org/0000-0002-9002-4211, Omerbašić, D. ORCID: https://orcid.org/0000-0003-1839-4856 and Lewin, G.R. ORCID: https://orcid.org/0000-0002-2890-6352
Journal of Visualized Experiments (115): e52966. 1 September 2016

Using light sheet fluorescence microscopy to image zebrafish eye development.
Icha, J., Schmied, C., Sidhaye, J., Tomancak, P., Preibisch, S. ORCID: https://orcid.org/0000-0002-0276-494X and Norden, C.
Journal of Visualized Experiments 2016 (110): e53966. 10 April 2016

Single molecule fluorescence microscopy on planar supported bilayers.
Axmann, M., Schütz, G.J. and Huppa, J.B. ORCID: https://orcid.org/0000-0003-2634-8198
Journal of Visualized Experiments (105): e53158. 31 October 2015

Measuring TCR-pMHC binding in situ using a FRET-based microscopy assay.
Axmann, M., Schütz, G.J. and Huppa, J.B. ORCID: https://orcid.org/0000-0003-2634-8198
Journal of Visualized Experiments (105): e53157. 30 October 2015

Automated quantification of hematopoietic cell - stromal cell interactions in histological images of undecalcified bone.
Zehentmeier, S., Cseresnyes, Z. ORCID: https://orcid.org/0000-0002-6574-2588, Escribano Navarro, J., Niesner, R.A. ORCID: https://orcid.org/0000-0001-8969-5432 and Hauser, A.E.
Journal of Visualized Experiments (98) 8 April 2015

Large-scale zebrafish embryonic heart dissection for transcriptional analysis.
Lombardo, V.A., Otten, C. ORCID: https://orcid.org/0000-0002-8230-7350 and Abdelilah-Seyfried, S. ORCID: https://orcid.org/0000-0003-3183-3841
Journal of Visualized Experiments (95) 12 January 2015

Highly resolved intravital striped-illumination microscopy of germinal centers.
Cseresnyes, Z. ORCID: https://orcid.org/0000-0002-6574-2588, Oehme, L., Andresen, V., Sporbert, A. ORCID: https://orcid.org/0000-0002-3738-1295, Hauser, A.E. and Niesner, R. ORCID: https://orcid.org/0000-0001-8969-5432
Journal of Visualized Experiments (86): e51135. 9 April 2014

Culturing primary rat inner medullary collecting duct cells.
Faust, D., Geelhaar, A., Eisermann, B., Eichhorst, J., Wiesner, B., Rosenthal, W. and Klussmann, E. ORCID: https://orcid.org/0000-0003-4004-5003
Journal of Visualized Experiments (76): e50366. 21 June 2013

Monitoring dendritic cell migration using (19)F/(1)H magnetic resonance imaging.
Waiczies, H. ORCID: https://orcid.org/0000-0001-6651-4790, Guenther, M., Skodowski, J., Lepore, S., Pohlmann, A. ORCID: https://orcid.org/0000-0002-8572-2568, Niendorf, T. ORCID: https://orcid.org/0000-0001-7584-6527 and Waiczies, S. ORCID: https://orcid.org/0000-0002-9916-9572
Journal of Visualized Experiments (73): e50251. 20 March 2013

Isolation and kv channel recordings in murine atrial and ventricular cardiomyocytes.
Koehncke, C., Lisewski, U., Schleussner, L., Gaertner, C., Reichert, S. and Roepke, T.K.
Journal of Visualized Experiments (73): e50145. 12 March 2013

Laser-inflicted injury of zebrafish embryonic skeletal muscle.
Otten, C. ORCID: https://orcid.org/0000-0002-8230-7350 and Abdelilah-Seyfried, S. ORCID: https://orcid.org/0000-0003-3183-3841
Journal of Visualized Experiments 30 (71): e4351. 30 January 2013

Cell tracking using photoconvertible proteins during zebrafish development.
Lombardo, V.A., Sporbert, A. ORCID: https://orcid.org/0000-0002-3738-1295 and Abdelilah-Seyfried, S. ORCID: https://orcid.org/0000-0003-3183-3841
Journal of Visualized Experiments (67): e4350. 28 September 2012

A system for ex vivo culturing of embryonic pancreas.
Petzold, K.M. and Spagnoli, F.M. ORCID: https://orcid.org/0000-0001-7094-8188
Journal of Visualized Experiments (66): e3979. 27 August 2012

Detection of microRNAs in microglia by real-time PCR in normal CNS and during neuroinflammation.
Veremeyko, T., Starossom, S.C. ORCID: https://orcid.org/0000-0001-7935-9910, Weiner, H.L. and Ponomarev, E.D.
Journal of Visualized Experiments (65): e4097. 23 July 2012

DiI-labeling of DRG neurons to study axonal branching in a whole mount preparation of mouse embryonic spinal cord.
Schmidt, H. and Rathjen, F.G. ORCID: https://orcid.org/0000-0001-5351-613X
Journal of Visualized Experiments (58): e3667. 13 December 2011

PAR-CliP: a method to identify transcriptome-wide the binding sites of RNA binding proteins.
Hafner, M., Landthaler, M. ORCID: https://orcid.org/0000-0002-1075-8734, Burger, L., Khorshid, M., Hausser, J., Berninger, P., Rothballer, A., Ascano, M., Jungkamp, A.C., Munschauer, M. ORCID: https://orcid.org/0000-0001-6143-4548, Ulrich, A., Wardle, G.S., Dewell, S., Zavolan, M. and Tuschl, T.
Journal of Visualized Experiments 41 (2034): e2034. 2 July 2010