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A heatmap was built using the gene expression for the genes differentially expressed upon treatment with JQ1 when a threshold of log2 < −0.2 or log2 > 0.2 was applied.
We mapped the top 10%% highly expressed genes to tissues/cells using the gene expression atlas data downloaded from Genomics Institute of the Novartis Research Foundation (GNF) [ 19].
Gene expression mosaics representing the expression patterns of differentially regulated genes were generated using the Gene Expression Dynamics Inspector (GEDI) [ 22, 23, 52, 53].
Hierarchical clustering was performed using the gene expression module from Partek.
The psc of 637 molecular pathways were calculated using the gene expression data from VD+ and VD− samples.
Hybridization was performed using the Gene expression hybridization kit (Cat. No. 5188 5242) as described in Supporting Information S1.
We reduced the dimensionality of the entire transcriptome using the gene expression dynamics inspector (GEDI) program [41].
We performed hierarchical clustering using the gene expression data produced by PCR array analysis.
Gene-expression mosaics were generated by using the Gene Expression Dynamics Inspector (GEDI) platform.
Figure 1 (A) represents an example graph, which was conducted using the gene expression.
Expression data were analysed using the Gene Expression Module 3.2.7 within Illumina® BeadStudio.
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