Whole-brain imaging with single-cell resolution using chemical cocktails and computational analysis

Susaki, Etsuo A., Tainaka, Kazuki, Perrin, Dimitri, Kishino, Fumiaki, Tawara, Takehiro, Watanabe, Tomonobu M, Yokoyama, Chihiro, Onoe, Hirotaka, Eguchi, Megumi, Yamaguchi, Shun, Abe, Takaya, Kiyonari, Hiroshi, Shimizu, Yoshihiro, Miyawaki, Atsushi, Yokota, Hideo, & Ueda, Hiroki R (2014) Whole-brain imaging with single-cell resolution using chemical cocktails and computational analysis. Cell, 157(3), pp. 726-739.

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Systems-level identification and analysis of cellular circuits in the brain will require the development of whole-brain imaging with single-cell resolution. To this end, we performed comprehensive chemical screening to develop a whole-brain clearing and imaging method, termed CUBIC (clear, unobstructed brain imaging cocktails and computational analysis). CUBIC is a simple and efficient method involving the immersion of brain samples in chemical mixtures containing aminoalcohols, which enables rapid whole-brain imaging with single-photon excitation microscopy. CUBIC is applicable to multicolor imaging of fluorescent proteins or immunostained samples in adult brains and is scalable from a primate brain to subcellular structures. We also developed a whole-brain cell-nuclear counterstaining protocol and a computational image analysis pipeline that, together with CUBIC reagents, enable the visualization and quantification of neural activities induced by environmental stimulation. CUBIC enables time-course expression profiling of whole adult brains with single-cell resolution.

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ID Code: 82685
Item Type: Journal Article
Refereed: Yes
DOI: 10.1016/j.cell.2014.03.042
ISSN: 0092-8674
Divisions: Current > Schools > School of Electrical Engineering & Computer Science
Current > QUT Faculties and Divisions > Science & Engineering Faculty
Copyright Owner: Copyright 2014 Elsevier Inc.
Deposited On: 22 Mar 2015 23:33
Last Modified: 25 Mar 2015 23:20

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