A single source k-shortest paths algorithm to infer regulatory pathways in a gene network

Robust and accurate data enrichment statistics via distribution function of sum of weights

(2010) Aleksandar Stojmirović et al.   BIOINFORMATICS

ITM Probe: analyzing information flow in protein networks

(2009) A. Stojmirovic et al.   BIOINFORMATICS

Spectral affinity in protein networks

(2009) Konstantin Voevodski et al.   BMC Systems Biology

The protein phosphatase 2A functions in the spindle position checkpoint by regulating the checkpoint kinase Kin4

(2009) L. Y. Chan et al.   GENES & DEVELOPMENT

A Factor Graph Nested Effects Model To Identify Networks from Genetic Perturbations

(2009) Charles J. Vaske et al.   PLoS Computational Biology

Information Flow Analysis of Interactome Networks

(2009) Patrycja Vasilyev Missiuro et al.   PLoS Computational Biology

eQED: an efficient method for interpreting eQTL associations using protein networks

(2008) Silpa Suthram et al.   Molecular Systems Biology