systems medicine

BiCoN: Network-constrained biclustering of patients and omics data

**Motivation** Unsupervised learning approaches are frequently employed to identify patient subgroups and biomarkers such as disease-associated genes. Thus, clustering and biclustering are powerful techniques often used with expression data, but are …

Computational Strategies to Combat COVID-19: Useful Tools to Accelerate SARS-CoV-2 and Coronavirus Research

SARS-CoV-2 (severe acute respiratory syndrome coronavirus 2) is a novel virus of the family Coronaviridae. The virus causes the infectious disease COVID-19. The biology of coronaviruses has been studied for many years. However, bioinformatics tools …

DIGGER

Analyze protein-protein and domain-domain interactions in a joint graph.

Exploring the SARS-CoV-2 virus-host-drug interactome for drug repurposing

Coronavirus Disease-2019 (COVID-19) is an infectious disease caused by the SARS-CoV-2 virus. Various studies exist about the molecular mechanisms of viral infection. However, such information is spread across many publications and it is very …

Mechanistic Modeling and Multiscale Applications for Precision Medicine: Theory and Practice

Drug research, therapy development, and other areas of pharmacology and medicine can benefit from simulations and optimization of mathematical models that contain a mathematical description of interactions between systems elements at the cellular, …

The fight against COVID-19

The CoVex systems medicine platform allows identifying putative drug targets and drug repurposing candidates to treat COVID-19.

CoVex

A web app for mining the Sars-COV-1/2 virus-host-drug interactome for drug repurposing candidates.

BiCoN

A python package and web application for network-constrained biclustering for patient stratification.

immunedeconv

An R package for running several tools for in silico cell type deconvolution for immuno-oncology.

KPM

A web app for *de novo* network enrichment, i.e. to integrate multi-omics data with the interactome.