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. 2018 Apr 4;15:9. doi: 10.1186/s12987-018-0094-5

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© The Author(s) 2018

Open AccessThis article is distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided 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 Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated.

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Fig. 4 — Transcriptome analysis indicates differences in Type I interferon activation and lipid metabolism pathways. a PCA mapping of log₂ normalized read counts on global gene expression. The first three dimensions account for 38.3% of the total variance with grouping of individual WT- and ccALD-iBMEC replicates and separation of the experimental and control samples along PC1. b Heat map of DEG (n = 1381) on log₂ normalized read counts. Cluster annotations are from gene ontology analysis. c IPA upstream regulator analysis of transcriptional regulators predicted by activation z-scores. p-values calculated by Fisher’s exact test using expected and observed genes overlapping with the WT versus ccALD DEGs and all genes regulated by each transcriptional regulator. d GO terms of pathways upregulated in ccALD in red with downregulated pathways in green. Data analyzed from three independent experiments with three biological replicates each (n = 9)