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. 2023 Jul 22;6:768. doi: 10.1038/s42003-023-05128-y

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© The Author(s) 2023, corrected publication 2023

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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Fig. 2 — a–e Differential Rank Conservation (DIRAC) analysis of the LC-M001 proteomics data using Gene Ontology Biological Process (GOBP)-defined modules (see Supplementary Data 1 for complete results). a, b Overall distribution of module rank conservation index (RCI). Data in a: median (center line), 95% confidence interval (CI) around median (notch), [Q₁, Q₃] (box limits), [x_min, x_max] (whiskers), where Q₁ and Q₃ are the 1st and 3rd quartile values, and x_min and x_max are the minimum and maximum values in [Q₁ − 1.5 × IQR, Q₃ + 1.5 × IQR] (IQR: the interquartile range, Q₃ − Q₁), respectively; n = 164 modules. ***P < 0.001 by two-sided Mann–Whitney U-tests after the Benjamini–Hochberg adjustment across three comparisons. The top color columns in b highlight the modules that exhibited (1) the significant intervention effect on module RCI (Analysis of Variance (ANOVA) after the Benjamini–Hochberg adjustment across 164 modules) and (2) significantly higher RCI in intervention group than control group (i.e., tightened module; the post hoc two-sided Welch’s t-tests after the Benjamini–Hochberg adjustment across three comparisons). c Venn diagram of the significantly tightened modules by each intervention. For each set of the tightened modules, contingency table indicates the number of modules for which the other intervention groups exhibited significantly higher or lower mean of rank matching scores (RMSs) under the rank consensus than control group (i.e., similarly or dissimilarly changed module to the consensus group, respectively; two-sided Welch’s t-tests after the Benjamini–Hochberg adjustment across six (two comparisons × three rank consensus) comparisons). d, e Sample RMS distributions for an example of the tightened modules (GO:0031998, regulation of fatty acid β-oxidation). Dashed line in e indicates the mean of RMSs for the rank consensus group (i.e., RCI). Data: the mean (dot) with 95% CI (bar); n = 12 mice. *P < 0.05, **P < 0.01, ***P < 0.001 by two-sided Welch’s t-tests after the Benjamini–Hochberg adjustment across three (d) or six (two comparisons × three rank consensus; e) comparisons.