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. 2022 Jul 11;9:395. doi: 10.1038/s41597-022-01512-1

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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 — Reproducibility of proteomic samples. (a) Principal component analysis (PCA) was performed to illustrate the reproducibility of samples. The PCA plot shows clustering of samples with the same cell culture conditions.The first 3 principal components (PCs) contribute to 91.53% of the variation in the data. (b) A PCA biplot illustrating the PC loadings and the first two principal components, PC1 and PC2. The angle between vectors shows that Palbo 7 days FBS and Palbo 7 days starved samples are closely correlated. DMSO starved and DMSO FBS samples are correlated to eachother and have a low correlation with all Palbocicib-treated samples. The PCA analysis was carried out using the bioinfokit package in Python version 3.8.8⁵⁵. (c) A similarity matrix (Pearson correlation) of total protein scaled abundances which has been subjected to hierarchical clustering (Euclidean distance with complete linkage), to reveal that samples of the same conditions cluster together on the matrix. Thus, the samples of the same condition in question are highly correlated. The Phantasus server was used for this analysis (https://artyomovlab.wustl.edu/phantasus/).