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. 2021 Oct 20;12:6106. doi: 10.1038/s41467-021-26328-2

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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 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. 5 — a A t-SNE plot represents the similarities in Pearson correlation coefficients among gene expression profiles of 15 cell types* (denoted by label) in 20 simulated bulk PBMC data. b Performances (Pearson correlation coefficient; y-axis) of BLADE (orange), CIBERSORTx (blue), NNLS (dark red), and MuSiC (light yellow) in predicting cellular fractions of the 20 simulated PBMC bulk RNA-seq data with diverse levels (n = 4, 7, 12, and 15 cell types, respectively, in levels 1–4; x-axis). The standard boxplot notation was used (lower/upper hinges —first/third quartiles; whiskers extend from the hinges to the largest/lowest values no further than 1.5 * inter-quartile ranges). c Comparison of performance in estimating the cellular fractions per cell type of BLADE (y-axis) with CIBERSORTx, NNLS, and MuSiC (x-axis) at level 4. The fraction of each cell type is indicated by the size of the point. Pearson correlation coefficient and two-tailed test P-values are indicated at the top left in each panel. d Performance of BLADE (indicated by color) and its association to the number of unique DEGs per cell type (x-axis) and the respective fraction in the simulated data (y-axis). e Performance in Pearson correlation coefficient of BLADE (orange), CIBERSORTx (blue) for group mode purification of four levels of PBMC simulation data (n = 4, 7, 12, and 15 cell types, respectively, in levels 1–4; x-axis). The standard boxplot notation was used. f Performance (Pearson correlation coefficient; y-axis) of BLADE (orange) and CIBERSORTx (blue) in estimating gene expression profiles per cell type (x-axis) and per sample in level 4 (n = 20 samples per cell type; left). Fraction of genes in silico purified in high-resolution mode by CIBERSORTx at all levels of PBMC simulation data (n = 20 samples with 4, 7, 12, and 15 cell types, respectively, in levels 1–4; x-axis; right). The standard boxplot notation was used. *(CMCD4T: central memory CD4+ T cell; CMonocytes: classical monocytes; EMCD4T: effector memory CD4+ T cell; mDC: myeloid dendritic cell; MemoryB: memory B cell; MemoryCD8T: memory CD8+ T cell; NaiveB: naive B cell; NaiveCD4T: naive CD4+ T cell; NaiveCD8T: naive CD8+ T cell; NKcells: natural killer cell; NKT: natural killer T cell; Nmonocyte: non-classical monocyte; pDC: plasmacytoid dendritic cell; TRegs: regulatory T cell).