Metabolism has historically been studied at the levels of whole cells, whole tissues and
whole organisms. As a result, our understanding of how compartmentalization—the spatial …

Metabolomics comprises the methods and techniques that are used to measure the small
molecule composition of biofluids and tissues, and is actually one of the most rapidly …

Background RNA-seq is widely used for transcriptomic profiling, but the bioinformatics
analysis of resultant data can be time-consuming and challenging, especially for biologists …

Genome-scale metabolic models (GEMs) are valuable tools to study metabolism and
provide a scaffold for the integrative analysis of omics data. Researchers have developed …

Cytoscape is open-source software for integration, visualization and analysis of biological
networks. It can be extended through Cytoscape plugins, enabling a broad community of …

The functional interpretation of high throughput metabolomics by mass spectrometry is
hindered by the identification of metabolites, a tedious and challenging task. We present a …

Given the functional interdependencies between the molecular components in a human cell,
a disease is rarely a consequence of an abnormality in a single gene, but reflects the …

Despite considerable progress in genome-and proteome-based high-throughput screening
methods and in rational drug design, the increase in approved drugs in the past decade did …

Complex biological systems and cellular networks may underlie most genotype to
phenotype relationships. Here, we review basic concepts in network biology, discussing …

Several liver disorders result from perturbations in the metabolism of hepatocytes, and their
underlying mechanisms can be outlined through the use of genome-scale metabolic models …