Identification of protein–protein interactions (PPIs) is at the center of molecular biology
considering the unquestionable role of proteins in cells. Combinatorial interactions result in …

One of the challenges raised by next generation sequencing (NGS) is the identification of
clinically relevant mutations among all the genetic variation found in an individual. Network …

Genetic risk for autism spectrum disorder (ASD) is associated with hundreds of genes
spanning a wide range of biological functions,,,,–. The alterations in the human brain …

Single-cell technology enables study of signal transduction in a complex tissue at
unprecedented resolution. We describe CytoTalk for de novo construction of cell type …

Uncovering the molecular context of dysregulated metabolites is crucial to understand
pathogenic pathways. However, their system-level analysis has been limited owing to …

High-throughput,'omic'methods provide sensitive measures of biological responses to
perturbations. However, inherent biases in high-throughput assays make it difficult to …

Regulatory network reconstruction is a fundamental problem in computational biology.
There are significant limitations to such reconstruction using individual datasets, and …

Motivation The analysis of high-dimensional 'omics data is often informed by the use of
biological interaction networks. For example, protein–protein interaction networks have …

The Steiner tree problem (STP) in graphs is one of the most studied problems in
combinatorial optimization. Since its inception in 1970, numerous articles published in the …

Numerous genes and molecular pathways are implicated in neurodegenerative
proteinopathies, but their inter-relationships are poorly understood. We systematically …