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It would document cell capacity to generate an expression network by coordinated DNA changes at multiple locations in the genome.
Step 2: A mutation network and an expression network are constructed based on the mutation and expression matrices, respectively.
The latter can be considered as another source of variability, which can then be used to infer an expression network for each sample.
First, somatic mutations and CNVs are used to generate a mutation network, similarly an expression network is obtained from the gene expression profiles.
Exploring GWAS genes in the context of an expression network also allows one to relate network concepts, such as MM, to a measure of biological relevance.
Considering that several functional categories are overrepresented in our liver dataset it is plausible that the expression of some X chromosome genes may be perturbed indirectly through the action of shared transcription factors within an expression network.
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We apply network inference algorithms to two examples of non-Gaussian high-throughput genomic data to learn (i) an mRNA expression network, (ii) a somatic mutation network and (iii) a collectively inferred gene network based on both data types.
In order to explore comprehensively the correlation between two genes of a cis-NAT pair or a trans-NAT pair, a NAT expression network was constructed.
Recently, it was identified as a central regulator of a gene expression network in brain tissue involved in late-onset Alzheimer's disease [ 16, 40].
A gene expression network study in late-onset AD identified an immune system/microglia module that was highly correlated with AD pathology [ 49].
Furthermore, the tumor cell proliferation in human schwannomas has recently been linked to a gene expression network controlled by YAP [93].
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