Fig. 2: Gene expression is influenced by cell-type composition. | Neuropsychopharmacology

Fig. 2: Gene expression is influenced by cell-type composition.

From: Convergent genomic and pharmacological evidence of PI3K/GSK3 signaling alterations in neurons from schizophrenia patients

Fig. 2

A Fraction of relative cell-type RNA composition is determined by the cell-type regression calibration deconvolution model. Horizontal axis labels SCZ (red) and control (black) NPC and neuron cell lines, as well as pooled iPSC lines. B No significant differences in cell composition were observed in hiPSC–NPCs and hiPSC–neurons between cases and controls. C Principal components analysis (PCA) of gene expression data (scaled TPM) from hiPSCs (red), hiPSC–NPC (green), and hiPSC–neurons (blue) shows that both control (circles) and SCZ (triangles) samples cluster by cell type. D Variance partition analysis with violin plots of the percentage of variance explained by each variable over all the genes.

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