This study benchmarks 43 computational methods for identifying topologically associating domains (TADs), presents a tool based on a consensus strategy that leads to improved performance, and releases ...

HaploC-tools infer and compare haplotype-specific chromosome 3D structures, copy number, boundaries, and compartments in >100 Hi-C datasets, revealing widespread haplotype-specific chromatin organi...

Cancer evolution is a multi-faceted process and a major clinical challenge. Indeed, tumors constantly change as they progress through multiple mechanisms, the understanding of which is critical to an…

Cancer evolution is a multi-faceted process and a major clinical challenge. Indeed, tumors constantly change as they progress through multiple mechanisms, the understanding of which is critical to an…

Cancer evolution is a multi-faceted process and a major clinical challenge. Indeed, tumors constantly change as they progress through multiple mechanisms, the understanding of which is critical to an…

A novel multistep strategy reveals how parent-of-origin effects shape complex traits in large-scale biobanks.

Author summary Antibiotic resistance is an important public health threat: resistant infections are currently associated with 5 million deaths per year globally. This burden may increase further in th...

The evolutionary histories of major clades, including mammals, often comprise changes in their diversification dynamics, but how these changes occur remains debated. We combined comprehensive phylogen...

Machine learning (ML) models of drug sensitivity prediction are becoming increasingly popular in precision oncology. Here, we identify a fundamental limitation in standard measures of drug sensitivity...

The 2nd European Cancer Dependency Map Symposium is a scientific event open to the national and international scientific community working in computational genomics, pharmacogenomics, and therapeutic ...

Author summary Proteins perform crucial functions in the cell. The biological function of a protein is encoded in its amino-acid sequence. Natural selection acts at the level of function, while mutati...

By learning representations for both cells and various condition covariates, scPoli facilitates atlas-level integration and analysis of single-cell genomics datasets with improved interpretability.

The Institute of Oncology Research (IOR) The IOR, affiliated with the Università della Svizzera italiana (USI), is located in a brand-new, high-tech research building that hosts more than 20 differ

A lack of standardized benchmarks is hindering progress and patient benefits