Supplementary Figure 4: Protein co-regulation analysis identifies substantially more known protein–protein associations than mRNA co-regulation analysis across a range mRNA of precision thresholds. | Nature Biotechnology

Supplementary Figure 4: Protein co-regulation analysis identifies substantially more known protein–protein associations than mRNA co-regulation analysis across a range mRNA of precision thresholds.

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

Supplementary Figure 4

The analysis was done on identical numbers of gene products monitored in 36 cell lines. The RNAseq data published by Klinj et al.1 were used for mRNA-based co-regulation analysis. High confidence known protein-protein associations were extracted from the STRING database (score ≥ 0.700)2. The co-regulation analysis is described in the Supplementary Methods Section.

1. Klijn, C. et al. A comprehensive transcriptional portrait of human cancer cell lines. Nat Biotechnol 33, 306-312, doi:10.1038/nbt.3080 (2015).

2. Szklarczyk, D. et al. The STRING database in 2011: functional interaction networks of proteins, globally integrated and scored. Nucleic Acids Res 39, D561-568, doi:10.1093/nar/gkq973 (2011).

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