A community-based international effort generates standardized HLA allele-specific peptide assay libraries and enables the analysis of the human immunopeptidome by SWATH mass spectrometry.

The independent effects of transcription factor binding sites are large regardless of sequence context, but the interactions between sites are context dependent.

A combination of massively parallel reporter assays and mass spectrometry uncovers the regulation of previously unexplored promoters across the Escherichia coli genome.

The endogenous 3′UTR does not regulate TP53 mRNA or protein level and the 3′UTR is repressive when used alone in reporters, but addition of the coding region has a dominant repressive effect.

A novel strategy is presented for quantitatively measuring protein-DNA and protein-protein interactions that regulate transcription in living cells.

The inclusion of a new alternatively spliced exon in Tcf7l2 can switch its function to repress transcription of Wnt target genes.

mSTARR-seq identifies regions of the genome where DNA methylation causally impacts gene expression, providing a map of which epigenetic marks may influence trait variation.

Linking deep mutational scanning with engineered transcriptional reporters in human cell lines establishes a generalizable method for exploring pharmacogenomics, structure, and function across broad classes of drug receptors.

In nematode worms, NSUN-1 methylates ribosomal RNA and influences phenotypes related to aging, stress resistance, germ line development, and cuticle integrity by regulating translation of specific mRNAs.

Yeast promoters can harbor multiple natural DNA variants that influence gene expression, interact genetically, evolve under negative selection, alter transcription factor motifs, and remain challenging to predict.