Single-cell profiling methods have had a profound impact on the understanding of cellular
heterogeneity. While genomes and transcriptomes can be explored at the single-cell level, …

Background Onco-proteogenomics aims to understand how changes in a cancer’s genome
influences its proteome. One challenge in integrating these molecular data is the …

An important stage in severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) life
cycle is the binding of the spike (S) protein to the angiotensin converting enzyme-2 (ACE2) …

DNA sequencing has identified recurrent mutations that drive the aggressiveness of
prostate cancers. Surprisingly, the influence of genomic, epigenomic, and transcriptomic …

Mammalian cells have about 30,000 times as many protein molecules as mRNA molecules,
which has major implications in the development of proteomics technologies. We discuss …

The complexities of tumor genomes are rapidly being uncovered, but how they are regulated
into functional proteomes remains poorly understood. Standard proteomics workflows use …

… Javier A. Alfaro Javier A. …

Recent interest in targeted therapies has been sparked by the study of MHC-associated
peptides (MAPs) that undergo post-translational modifications (PTMs), particularly glycosylation. …

Knowledge graphs are powerful tools for representing and organising complex biomedical
data. Several knowledge graph embedding algorithms have been proposed to learn from …

Tumor antigens can emerge through multiple mechanisms, including translation of noncoding
genomic regions. This noncanonical category of tumor antigens has recently gained …