Systems & Computational Biology
Proteins of generalist and specialist pathogens differ in their amino acid compositionPrimitive amino acids and disorder content in secreted proteins are distinctively enriched in generalist compared with host-specific pathogens.
Dynamic m6A methylation facilitates mRNA triaging to stress granulesm6A modification in the 5′ vicinity of the coding sequence of transcripts provides a selective mechanism for triaging mRNAs to stress granules and is mediated by the YTHDF3 “reader” protein.
Chronic platelet-derived growth factor receptor signaling exerts control over initiation of protein translation in gliomaUsing phospho-proteomics in a new model of malignant glioma, we reveal that clinically relevant, chronic PDGFRα signaling differs considerably from acute receptor stimulation and unveils previously unrecognized control over key elements of the translation initiation machinery.
Co-existing feedback loops generate tissue-specific circadian rhythmsThe analysis of tissue-specific data-based models of the gene regulatory network of the mammalian circadian clock reveals organ-specific synergies of feedback loops.
Multi-region proteome analysis quantifies spatial heterogeneity of prostate tissue biomarkersApplication of pressure cycling technology and Sequential Windowed Acquisition of all THeoretical mass spectrometry allows quantifying the degree of intra-tumor heterogeneity of protein expression in prostate tumors. The data show that protein intra-tumor heterogeneity, if not characterized, may distort protein biomarker suitability in tumor tissues.
Pervasive allele-specific regulation on RNA decay in hybrid miceUsing a F1 hybrid mouse system, this study globally investigates the effects of cis-regulatory divergence on RNA decay in mammals and reveals the evolutionary roles of RNA decay regulation.