Modern genome-scale methods that identify new genes, such as proteogenomics and
ribosome profiling, have revealed, to the surprise of many, that overlap in genes, open …

Genes and translated open reading frames (ORFs) that emerged de novo from previously
non-coding sequences provide species with opportunities for adaptation. When aberrantly …

To the Editor—Ribosome profiling (Ribo-seq) has extended our understanding of the
translational 'vocabulary'of the human genome, uncovering thousands of open reading …

The ProteomeXchange (PX) consortium of proteomics resources (http://www.
proteomexchange. org) has standardized data submission and dissemination of mass …

Combining RNA sequencing, ribosome profiling, and mass spectrometry, we elucidate the
contribution of non-canonical translation to the proteome and major histocompatibility …

Abstract Ribosome profiling (Ribo-Seq) has proven transformative for our understanding of
the human genome and proteome by illuminating thousands of noncanonical sites of …

Many tumour antigens that do not arise from cancer cell-specific mutations are targets of
humoral and cellular immunity despite their expression on non-malignant cells. Thus, in …

Abstract OpenProt (www. openprot. org) is the first proteogenomic resource supporting a
polycistronic annotation model for eukaryotic genomes. It provides a deeper annotation of …

Short ORFs (sORFs), that is, occurrences of a start and stop codon within 100 codons or
less, can be found in organisms of all domains of life, outnumbering annotated protein …

Proteomes are complex—much more so than genomes or transcriptomes. Thus, simplifying
their analysis does not simplify the issue. Proteomes are of proteoforms, not canonical …