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. 2024 Jun 18;22:576. doi: 10.1186/s12967-024-05400-7

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© The Author(s) 2024

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 licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence 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 licence, visit http://creativecommons.org/licenses/by/4.0/. 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 in a credit line to the data.

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Fig. 5 — Transcriptomic landscape mapping of the dysregulated pathways in VAF-related stratification system A Clustering dendrogram obtained by average linkage hierarchical clustering. The color row underneath the dendrogram shows the module assignment determined by the Dynamic Tree Cut. B Module-trait relationships. Each row corresponds to one module eigengene (labeled by color). Blue color represents a negative correlation, while red represents a positive correlation. Pearson correlation coefficient (p-value). C Kyoto encyclopedia of genes and genomes (KEGG) module enrichment analysis. Red modules and pathways are positively related to the high-score group. Blue modules and pathways are negatively related to the low-score group. Fisher's exact test. The adjusted p-value was calculated by Benjamini and Hochberg false discovery rate (FDR) method. FDR < 0.05 was considered statistically significant. The plot showed the top 5 pathways of each module. D Pathways enriched in the high- and low-score group in Gene set enrichment analysis (GSEA) of the whole gene set. NES, normalized enrichment risk. NES > 0 indicated the pathway was enriched in the low-score group. NES < 0 indicated the pathway was enriched in the high-score group. FDR, false discovery rate. FDR < 0.05 was considered statistically significant.