1. Principles and Strategies for Developing Network Models in Cancer
Dana Pe'er, Nir Hacohen 
Cell 
Volume 144, Issue 6, Pages (March 2011)
DOI: /j.cell
Copyright © 2011 Elsevier Inc. Terms and Conditions

2. Figure 1
Differential Networks Explain Phenotypic Variation across Contexts
The function of a molecular network is determined by context: genetics, tissue type, environment (e.g., nutrients), cell-cell communication, and small molecules. These influences combine to determine the phenotypic response. The “differential network” (colored nodes and edges) models the essential components that determine how and why a phenotypic response will vary between contexts.
Cell  , DOI: ( /j.cell )
Copyright © 2011 Elsevier Inc. Terms and Conditions

3. Figure 2 Experimental Design for Network Inference
(A) To comprehensively characterize tumor response to a drug, we suggest profiling a cohort of genetically characterized tumors using multiple technologies, following perturbation with small molecules and RNAi. Then, data-driven algorithms can infer differential network models from these data. The inferred models subsequently guide the design of experiments for the next iteration of data collection.
(B) This figure illustrates how different genetic backgrounds and experiments can help to identify driver mutations and network structure. Each identified mutation recurs in a subset of samples, and driver targets are identified by knockdown using RNAi or drug.
Cell  , DOI: ( /j.cell )
Copyright © 2011 Elsevier Inc. Terms and Conditions