Supplementary Figure 3: Global comparison of protein and mRNA levels for 36 breast cancer cell lines. | Nature Biotechnology

Supplementary Figure 3: Global comparison of protein and mRNA levels for 36 breast cancer cell lines.

From: Detection of dysregulated protein-association networks by high-throughput proteomics predicts cancer vulnerabilities

Supplementary Figure 3

(a) Scatterplot of protein levels measured in two biological replicates of HCC1937 proteomes. Protein levels were calculated as the log2 ratio of the protein level determined in each duplicates over the median protein level in all proteome measurements (duplicates of 36 cell lines); log2 HCC1937 intensity/median intensity. (b) Scatterplot of protein levels measured in one biological duplicate versus mRNA level measured by RNA sequencing analysis. Both levels are given as log2 HCC1937 intensity/median intensity. (c) Spearman correlation distribution for duplicate proteomics measurements (dark blue, median Spearman’s r = 0.82) and mRNA and protein level comparisons (yellow, median ρ = 0.62).

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