Spatial proximity of genes affects mRNA but not protein regulation

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Spatial proximity of genes affects mRNA but not protein regulation Spatial proximity of genes affects mRNA but not protein regulation We analysed previously reported mRNA and protein abundances in 59 lymphoblastoid cell lines (LCLs), relative to a reference sample.Genes transcribed from bidirectional promoters frequently have co‐regulated mRNA abundances, but only a fraction of these also have co‐regulated protein abundances (left). The same is true for non‐bidirectional gene pairs whose transcription start sites (TSS) are < 50 kb apart, irrespective of their orientation (right) (*P < 0.05, **P < 2 × 10−7, ***P < 4 × 10−14 based on Fisher's exact test).mRNA co‐regulation of gene pairs on chromosome 11 decreases with chromosomal distance over many megabases, but not monotonously. Protein co‐regulation is unaffected by genomic distance.mRNA co‐regulation map for chromosome 11 showing large patches of co‐regulated (brown) and anti‐regulated (blue) gene pairs. Four large, co‐regulated patches are highlighted (i–iv).No regulation patches exist on the protein level.mRNA co‐regulation patches partially coincide with physical associations between genes derived from Hi‐C data (Rao et al, 2014). Numbers in grey box show the Pearson correlation between the Hi‐C map and mRNA (blue) or protein (red) co‐regulation maps.Patches i, iii and ii, iv broadly coincide with genome subcompartments A1 and A2, respectively. Georg Kustatscher et al. Mol Syst Biol 2017;13:937 © as stated in the article, figure or figure legend