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. 2020 Mar 16;147(6):dev184143. doi: 10.1242/dev.184143

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© 2020. Published by The Company of Biologists Ltd

This is an Open Access article distributed under the terms of the Creative Commons Attribution License (https://creativecommons.org/licenses/by/4.0), which permits unrestricted use, distribution and reproduction in any medium provided that the original work is properly attributed.

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Fig. 2. — Cell population composition and signatures of the 16 hpf hindbrain. (A) An unsupervised UMAP plot subdivides hindbrain cells into 10 clusters (C0-C9). Dotted lines segregate different rhombomeres (r), midbrain-hindbrain boundary (MHB), floor plate (FP), roof plate (RP) and cells undergoing neurogenesis are also highlighted. The red line separates dorsal versus ventral cells. UMAP2 (y-axis) is discontinuous. Below the UMAP, a schematic view of the zebrafish hindbrain at 16 hpf and selected segmental genes. (B) Heatmap of the top 30 genes significantly enriched in each cluster; representative gene names are shown close to each cluster. The full gene list is in Fig. S3. (C) UMAP plots showing the log normalised counts of representative genes. Colour intensity is proportional to the expression level. Arrowheads indicate the relevant domain of expression; colour refers to cluster of origin. (D) Summary of rhombomere-specific genes extracted from the top 30 significantly enriched. (E) Summary of genes restricted along the D-V axis.