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. 2022 Jul 11;12:11748. doi: 10.1038/s41598-022-15640-6

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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 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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Proteome analysis of control, TGFß1- and TNFα-treated MEFs using LC–MS/MS. (a) Heatmap summarizing DEPs in TGFß1- (5 ng/ml) or TNFα- (10 ng/ml) treated MEFs for 72 h compared to untreated MEFs (controls; q-value < 0.05) after normalization with Z-score. Hierarchical clustering was constructed with Euclidean distance using Perseus software (https://maxquant.net/perseus). (b–c) Spearman correlation of DEGs expressed as log2(FC) assessed by RNA microarrays and DEPs as log2(FC) assessed by LC–MS/MS in TGFß1 (b; n = 150) and TNFα- treated (c; n = 110) MEFs compared to control MEFs. (d–e) Enrichment analysis summarizing the most representative up-regulated pathways in TGFß1_up^prot and in TNFα_up^prot (q-value < 0.05) using Metascape (http://metascape.org/gp/index.html#/main/step1). N = 3 biological replicas (3 independent experiments).