Juntendo University Graduate School of Medicine 1 article published in JoVE Neuroscience A Tissue Clearing Method for Neuronal Imaging from Mesoscopic to Microscopic Scales Kenta Yamauchi1,2, Shinichiro Okamoto1,2,3, Megumu Takahashi1,2,4,5, Masato Koike2,3, Takahiro Furuta6, Hiroyuki Hioki1,2,7 1Department of Neuroanatomy, Juntendo University Graduate School of Medicine, 2Department of Cell Biology and Neuroscience, Juntendo University Graduate School of Medicine, 3Advanced Research Institute for Health Sciences, Juntendo University, 4Department of Neuroscience, Graduate School of Medicine, Kyoto University, 5Japan Society for the Promotion of Science, 6Department of Oral Anatomy and Neurobiology, Graduate School of Dentistry, Osaka University, 7Department of Multi-Scale Brain Structure Imaging, Juntendo University Graduate School of Medicine The protocol provides a detailed method of neuronal imaging in brain slice using a tissue clearing method, ScaleSF. The protocol includes brain tissue preparation, tissue clarification, handling of cleared slices and confocal laser scanning microscopy imaging of neuronal structures from mesoscopic to microscopic levels.