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The phenotype of each individual is defined by the set of gene expression level x i after evolution for "developmental time," which starts from the time point with a given initial gene expression level (set as x i <0 for all i, i.e., none of the genes is expressed).
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Mortazavi et al. [ 9] proposed a multiread "rescue" method whereby initial gene expression levels are estimated from unique reads and used to fractionally allocate multireads, with final expression levels obtained by re-estimation based on total counts obtained after multiread allocation.
The faint VPg signal observed may be nonspecific staining or low-level initial gene expression that does not lead to permissive replication.
Carmel et al. argued this positive correlation is compatible with their findings that the initial gene elongation, in particular, in introns, would increase gene' expression level [ 13].
The gene expression level was quantified using RSEM (Li and Dewey 2011).
The gene expression level was calculated based on the transcript/gene ratio.
However, their association at gene expression level are lacking.
Genes were ranked based on gene expression level difference.
3) Gene expression level quantification.
These results show that increased levels of STAT1, STAT2, and IRF9 are likely to be important for the prolonged expression of anti-viral genes, while tyrosine phosphorylation of STATs 1 and 2 is important for initial gene expression.
Individuals were generated at random by drawing networks and initial vectors of gene expression levels from a uniform distribution on [-1, +1].
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