Extended Data Fig. 6: Technical validation of the deconvolution approach and comparison to human tumor samples. | Nature Genetics

Extended Data Fig. 6: Technical validation of the deconvolution approach and comparison to human tumor samples.

From: Investigation of a global mouse methylome atlas reveals subtype-specific copy number alterations in pediatric cancer models

Extended Data Fig. 6

a, Gating strategies used for sorting B cells (CD45 + CD19+ TCRb-), CD4 + T cells (CD45 + CD19+ TCRb+ CD4 + CD8-), CD4+ Treg cells (CD45 + CD19- TCRb+ CD4 + CD8- CD127- CD25+), CD8 + T cells (CD45 + CD19- TCRb+ CD4- CD8+), NK cells (CD45 + CD19- TCRb- CD11bdim NKp46 + NK1.1+), Granulocytes (CD45 + CD19- TCRb- CD11b + Ly6G + Ly6C-), Monocytes (CD45 + CD19- TCRb- CD11b + Ly6G- Ly6C+) and Eosinophils (CD45 + CD19- TCRb- CD11b+ SiglecF+ SSChigh) from C57BL6 and CD1 mice. b, Deconvolution of the sorted mouse immune cell populations used for the newly developed reference matrix using the PRmeth algorithm39 does not show a better performance than the employed EpiDish-algorithm. c, To test the newly generated reference matrix for deconvolution, a published reference matrix for mouse immune cells40 was used for deconvolution of the samples of the here described reference matrix. The published reference does not include brain tissue and is not able to outperform the here described new reference matrix. d, Comparison of immune cell populations derived from DNA methylation deconvolution of murine and human tumors.

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