About this Research Topic
In recent years there has been an increasing interest in methods that aim to infer biological networks. These methods enable the opportunity for better understanding the interactions between genomic features and the overall structure and behavior of the underlying networks. So far, such network models have been mainly used to identify and validate new interactions between genes of interest. But ultimately, one could use these networks to predict large-scale effects of perturbations, such as treatment by multiple targeted drugs. However, currently, we are still at an early stage of comprehending methods and approaches providing a robust statistical framework to quantitatively assess the quality of network inference and its predictive potential.
The scope of this Research Topic in Bioinformatics and Computational Biology aims at addressing these issues by investigating the various, complementary approaches to quantify the quality of network models. These “validation” techniques could focus on assessing quality of specific interactions, global and local structures, and predictive ability of network models. These methods could rely exclusively on in silico evaluation procedures or they could be coupled with novel experimental designs to generate the biological data necessary to properly validate inferred networks.
We are particularly interested in accommodating contributions that explore any of the following research topics (but not limited to):
• Inference of molecular networks
• Evaluation measures of inferred networks
• Comparison of evaluation measures
• Association vs. causal networks
• Statistical estimation procedures
• Optimization techniques
• Bayesian approaches
• Multiple testing problem in network inference
• Simulation of benchmark data sets
• Integration of different data types
• Directionality of inferred interactions
• Heterogeneity of inferred network
• Application of inferred networks
• Statistical inference vs. reverse reconstruction methods of networks
• Ensemble methods
• Organism specific differences
• Disease networks for complex disorders
• Experimental design
• Philosophical aspects of network inference and their interpretation
Important Note: All contributions to this Research Topic must be within the scope of the section and journal to which they are submitted, as defined in their mission statements. Frontiers reserves the right to guide an out-of-scope manuscript to a more suitable section or journal at any stage of peer review.