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. 2022 Jul 22;8:88. doi: 10.1038/s41523-022-00449-3

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© The Author(s) 2022

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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Fig. 3 — A Cluster dendrogram highlighting searching for gene co-expression modules. Final 11 modules are colored turquoise, black, gray, purple, cyan, brown, green, salmon, pink, greenyellow, and lightcyan. Biotype denote protein-coding genes, IG genes, TR genes, lncRNAs, or other RNAs. Test statistic is from differential analysis using DESeq package. B Modules description. First four columns show the module size and the number of genes categorized by biotype. Next two columns show p-values from statistical test comparing expression in NonAA vs AA patients. Last four columns show the number of enriched pathways in gene set analysis. C Association between module membership (correlation with module eigenvalue) and test statistic from DESEq2. Hub genes are those with highest value of module membership. D–G Topology layouts of highest module membership genes in each module. Nodes are colored by biotype. Size of the nodes is proportional to DESEq2 test statistic. Node shapes represent directionality of expression change (circle means higher expression in AA, while square means higher expression in NonAA cohort).