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. 2018 Sep 18;7(11):giy117. doi: 10.1093/gigascience/giy117

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© The Authors 2018. Published by Oxford University Press.

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

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Figure 3: — Cell fate specification revealed by reconstructed trajectory. (a) Differentiation trajectory constructed with 8,220 variable genes across different cell stages. Selected marker genes specific to the respective cell stage/subpopulation are indicated with black/purple. (b) The connection of subpopulations from iPSCs to NPCs stage across the five-differentiation process identified by Pearson correlation coefficient. The Pearson correlation coefficient of the two comparisons is indicated on the arrow line, respectively. (c) The divarication point within rosette stage (Ros-E and Ros-L) across the differentiation trajectory, branch 1, branch 2, and branch 3 based on their location on the differentiation trajectory are marked by dashed ellipse. Selected discriminative TFs specific to the respective branch are indicated. The columns represent the components of branch 1, branch 2, and branch 3, respectively. (d) Expression pattern of selected differentially expressed TFs among the three branches on the reconstructed trajectory (adjusted P value ≤ 0.01). Color scheme is based on expression [log2 (RPKM +1)]. (e) Expression pattern of representative differentially expressed TFs across different components of the three branches.