TRANSWESD: inferring cellular networks with transitive reduction.

ABSTRACT:

Motivation

Distinguishing direct from indirect influences is a central issue in reverse engineering of biological networks because it facilitates detection and removal of false positive edges. Transitive reduction is one approach for eliminating edges reflecting indirect effects but its use in reconstructing cyclic interaction graphs with true redundant structures is problematic.

Results

We present TRANSWESD, an elaborated variant of TRANSitive reduction for WEighted Signed Digraphs that overcomes conceptual problems of existing versions. Major changes and improvements concern: (i) new statistical approaches for generating high-quality perturbation graphs from systematic perturbation experiments; (ii) the use of edge weights (association strengths) for recognizing true redun

SUBMITTER: Klamt S 

PROVIDER: S-EPMC2922889 | biostudies-literature | 2010 Sep

REPOSITORIES: biostudies-literature