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. 2024 Aug 15;16(9):2146–2169. doi: 10.1038/s44321-024-00117-y

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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/. Creative Commons Public Domain Dedication waiver http://creativecommons.org/publicdomain/zero/1.0/ applies to the data associated with this article, unless otherwise stated in a credit line to the data, but does not extend to the graphical or creative elements of illustrations, charts, or figures. This waiver removes legal barriers to the re-use and mining of research data. According to standard scholarly practice, it is recommended to provide appropriate citation and attribution whenever technically possible.

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Figure EV4 — (A) The protein profiles of neutrophils under tPA + HRG vs. tPA treatments were analyzed by the data-independent acquisition (DIA) mode (n = 6 per group). DEPs between two groups were identified as the padj <0.05 and fold change >1.5. The volcano plots are shown. (B) The downregulated DEPs were analyzed by KEGG classification in neutrophils with tPA + HRG vs. tPA treatment groups. (C) Bubble plot of KEGG pathway analysis of downregulated DEPs. Rich ratio represents the ratio of the number of target proteins vs. all proteins included in each pathway. Dot size represents the relative number of enriched proteins. The color of the dot represents the size of the Q-value (padj). (D) KEGG pathway enrichment analysis of correlated (Cor)-DEGs-DEPs. The enrichment of the proteomics is represented by circles, while the enrichment of the transcriptomics is represented by diamonds. Dot size represents the relative number of enriched proteins. The color of the dot represents the size of the Q-value (padj). For statistical methods, we performed hypergeometric test and Benjamini-Hochberg correction for Q-value (padj). We performed KEGG functional enrichment for DEGs and DEPs by clusterProfiler R package (3.8.1).