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. 2019 Oct 30;9:15693. doi: 10.1038/s41598-019-52065-0

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© The Author(s) 2019

Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/.

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OptiJ reconstructions of murine lungs. Reconstructions of a left lobe labelled with anti surfactant C – Alexa Fluor 488 (a–d) and a medial lobe labelled with anti TTF1 – Alexa Fluor 488 (e–h) from 512 eOPT projections, displayed in xy, xz, and yz orthogonal views (left three columns), as well as rendered in 3D (right-most column). (a–d) The red arrows and the insets indicate the primary airways visualized in the orthogonal cross-sections. The 3D rendering in panel d displays a clipping plane through the lung, highlighting secondary and tertiary bronchi in the inset. (e–h) The red arrows indicate a set of main airways (secondary and tertiary bronchi) in the medial lobe, and red arrowheads indicate high-order airways inside or close to the parenchyma. Small airways close to the primary bronchi are highlighted in the insets on panels e and f. The 3D rendering in panel h with a clipping plane on one of the lobe faces shows a thick meshwork of higher order airways (quaternary bronchi and bronchioles). Interactive 3D renderings are available in our online repository.