Transcriptional regulation is a fundamental molecular mechanism involved in almost every
aspect of life, from homeostasis to development, from metabolism to behavior, from reaction …

The interplay of mathematical modelling with experiments is one of the central elements in
systems biology. The aim of reverse engineering is to infer, analyse and understand …

The prediction of transcription factor (TF) activities from the gene expression of their targets
(ie, TF regulon) is becoming a widely used approach to characterize the functional status of …

We report a comprehensive analysis of 412 muscle-invasive bladder cancers characterized
by multiple TCGA analytical platforms. Fifty-eight genes were significantly mutated, and the …

Functional enrichment analysis has played a key role in the biological interpretation of high-
throughput omics data. As a long-standing and widely used web application for functional …

The effectiveness of most cancer targeted therapies is short-lived. Tumors often develop
resistance that might be overcome with drug combinations. However, the number of possible …

Metabolic dysfunction-associated steatotic liver disease (MASLD) is the commonest cause
of chronic liver disease worldwide and represents an unmet precision medicine challenge …

While single-cell gene expression experiments present new challenges for data processing,
the cell-to-cell variability observed also reveals statistical relationships that can be used by …

Macrophage activation is associated with profound transcriptional reprogramming. Although
much progress has been made in the understanding of macrophage activation, polarization …

Early T-cell precursor acute lymphoblastic leukaemia (ETP ALL) is an aggressive
malignancy of unknown genetic basis. We performed whole-genome sequencing of 12 ETP …