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. 2018 Feb 1;8:2043. doi: 10.1038/s41598-018-20217-3

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© The Author(s) 2018

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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Transcriptome changes associated with SMARCA4 or SMARCA2 upregulation in LIHC. (a,c) Ranking (x-axis) of LIHC tumor samples according to SMARCA4 (a) or SMARCA2 (c) expression (normalized RNA-seq data) (y-axis). Dots corresponding to upper and lower deciles are depicted in red and blue, respectively. (b) Principal component (PC) analysis of transcriptomic data from ten SMARCA4-high (red) or ten SMARCA4-low (blue) tumors. (d) PC analysis of transcriptomic data from ten SMARCA2-high (red) or ten SMARCA2-low (blue) tumors. (e) Venn diagram showing overlap between SMARCA2-high upregulated and SMARCA4-high downregulated genes, and between SMARCA2-high downregulated and SMARCA4-high upregulated genes. Significance of overlap based on the hypergeometric test is provided. (f) Biological process (BP)-GO categories enriched in SMARCA4-high upregulated genes. (g) Expression levels (normalized RNA-seq data) of genes in the Wnt/β-catenin/LEF1 signal transduction pathway in SMARCA4-high and SMARCA4-low LIHC tumors. Student’s t-test P values are shown. (h) BP-GO categories enriched in SMARCA4-high downregulated genes. (i,j) BP-GO categories enriched in SMARCA2-high upregulated (i) and SMARCA2-high downregulated (j) genes. (f,h–j) Significance of the enrichment are presented as the P values of the hypergeometric test (−log₁₀ transformed).