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. 2021 Jun 3;11:11676. doi: 10.1038/s41598-021-91112-7

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© The Author(s) 2021

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/.

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Effect of DC-SIGN on gene expression in primary FL samples. (a–d) RNA-seq analysis in FL samples FL-B536, FL-LY86 and FL-LY221 stimulated with anti-IgM or DC-SIGN-Fc. (a) Volcano plots showing effect of anti-IgM (left) or DC-SIGN-Fc (right) on gene expression in anti-IgM/DC-SIGN-Fc-treated vs. non treated (NT) cells. Genes considered to be significantly upregulated or downregulated (log₂FC ≥ 1.0/ ≤ − 1.0, FDR Q ≤ 0.05) are colored red or blue, respectively. (b) Venn diagrams showing the degree of overlap between the anti-IgM and DC-SIGN-Fc upregulated (top panel) and downregulated (bottom panel) genes. (c) Graphs show effect of DC-SIGN-Fc on genes significantly (i) induced (log₂FC ≥ 1.0, FDR Q ≤ 0.05) or (ii) repressed (log₂FC ≤ 1.0, FDR Q ≤ 0.05) by anti-IgM, and of anti-IgM on genes significantly (i) induced (log₂FC ≥ 1.0, FDR Q ≤ 0.05) or (ii) repressed (log₂FC ≤ 1.0, FDR Q ≤ 0.05) by DC-SIGN-Fc. The black lines show regression line with 95% confidence interval (grey) fitted by linear regression between the log₂FC datasets. The blue dotted line is a line of equality (x = y). Results of Pearson’s correlation analysis are shown. (d) Gene set enrichment analysis (GSEA). Left panel shows NES scores for all gene sets for anti-IgM or DC-SIGN-Fc-treated FL samples, with gene sets with enrichment FDR Q < 0.01 colored as indicated. Right panel is an expanded view of the region containing positively correlated gene sets with enrichment FDR Q < 0.01¹ for both anti-IgM and DC-SIGN-Fc with identity of selected pathways detailed. Full details of GSEA outputs are provided in Supplementary file 2 online.