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Doing so permits an analysis of modularity that is based on network function, not just topology.
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Such differences call into question the broad applicability of the yeast methods for predicting function based on network topology.
This enabled the assignment of putative gene functions based on network neighbours.
It has been suggested that methods based on network knowledge are important approaches for protein function annotation in the postgenomic era [ 27].
Modeling provides the ability to infer functions and make predictions based on network perturbations [ 1- 6].
The process modeling of ZnO thin films grown by pulsed laser deposition (PLD) was investigated using neural networks based on radial basis function networks (RBFN) and multi-layer perceptron (MLP).
Various pathway-based association approaches have been pursued in human genetics, typically defining a pathway as a set of genes grouped together based on function or network analysis and testing its association with a disease phenotype (Lantieri et al. 2009; Wang et al. 2010).
An additional set of 12,853 edges were added to the network based on molecular function Gene Ontology (GO) based mapping of the targets.
Unlike GO analysis, which classifies individual gene candidates based on function, IPA networks represent gene relationships and interactions that are linked to specific molecular and cellular mechanisms.
In conclusion, we proposed a framework that integrates RNA-seq data and PPI network based on Bayesian network method to comprehensively characterize the functions of lncRNAs.
Our combined method that uses network alignment based on both function and sequence similarity led to several improvements in the module detection results.
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