Allows to model gene regulatory networks (GRNs) of different types. GeNGe uses GRNs in order to set up a deterministic ordinary differential equation (ODE) system. It offers features for the topological characterization of GRNs. Network parameters are computed, such as in - and out - degree distributions, average path lengths and clustering coefficients. The resulting data can be used for predicting effects of perturbations as theoretical counterparts of biological experiments, or as benchmark data for evaluating GRN reconstruction methods.
Vertebrate Genomics - Bioinformatics Group, Max Planck Institute for Molecular Genetics, Berlin, Germany
GeNGe funding source(s)
Supported by Max Planck Society and the EU under its sixth Framework Programme [grants EMBRACE (LSHG-CT-2004- 512092), AnEUploidy (LSHG-CT-2005-037627), the seventh Framework Programme project APO-SYS (HEALTH-F4-2007- 200767)]; German Federal Ministry of Education and Research (BMBF) through the NGFN Plus research initiative (Mutanom project (01GS08105)).