Figure 1
Heat map representations of differentially expressed genes belonging to the “neuron differentiation” and “negative regulation of cell differentiation” GO BP terms. Arbitrary signal intensity acquired from microarray analysis is represented by colours (green, higher; red, lower expression). Log2 signal intensity values for any single gene were resized to Row Z-Score scale (from -2, the lowest expression to +2, the highest expression for single gene)
Table 1
Gene symbols, Entrez gene IDs, ratio and corrected P values of studied genes
| GENE SYMBOL | ENTREZ GENE ID | RATIO | P VALUE |
|---|---|---|---|
| VEGFA | 397157 | -14.34938689 | 0.001912689 |
| BTG2 | 100048932 | -13.44331893 | 0.0000955 |
| MCOLN3 | 100625693 | -7.203754451 | 0.000850265 |
| EGR2 | 100038004 | -6.042156175 | 0.007949861 |
| TGFBR3 | 397512 | -5.088482493 | 0.000405979 |
| GJA1 | 100518636 | -4.833081147 | 0.000107676 |
| FST | 445002 | -4.450446449 | 0.000364693 |
| CTNNA2 | 100525337 | -4.349239665 | 0.000512181 |
| RTN4 | 100170118 | -4.321937118 | 0.027495815 |
| MDGA1 | 397529 | -4.293184001 | 0.003493167 |
| SLITRK3 | 106504067 | -4.181617506 | 0.004260951 |
| INHBA | 397093 | -4.144909849 | 0.000148036 |
| CDK6 | 100518921 | -4.032235086 | 0.006042481 |
| LAMB2 | 101101688 | -3.586055237 | 0.000187911 |
| ROBO2 | 100517681 | -3.524243185 | 0.001183495 |
| CUX1 | 100521258 | -3.342052921 | 0.000372663 |
| IHH | 397174 | -3.278733207 | 0.000551261 |
| EMX2 | 100152562 | -3.12387706 | 0.001929388 |
| ZCCHC11 | 100516979 | -3.109237139 | 0.019809962 |
| APP | 397663 | -3.08509997 | 0.005602323 |
| WWTR1 | 100522573 | -3.056215175 | 0.000254025 |
| SMARCA1 | 100188905 | -3.038211613 | 0.014758847 |
| SEMA5A | 100737194 | -2.829721119 | 0.001092396 |
| ITGB1 | 397019 | -2.73050204 | 0.003705215 |
| SMAD4 | 397142 | -2.71885268 | 0.001238681 |
| RORA | 100156637 | -2.60467925 | 0.021553766 |
| NOTCH2 | 100153369 | -2.598575668 | 0.002523723 |
| RYK | 100523513 | -2.370213023 | 0.00439989 |
| KIT | 396810 | -2.323181414 | 0.00255635 |
Figure 2
The circle plot showing the differently expressed genes and z-score “neuron differentiation” and “negative regulation of cell differentiation” GO BP Terms. The outer circle shows a scatter plot for each term of the fold change of the assigned genes. Red circles display downregulation. The inner circle shows the z-score of each GO BP term. The width of the each bar corresponds to the number of genes within GO BP term and the color corresponds to the z-score
Figure 3
The representation of the mutual relationship between differently expressed genes that belong to the “neuron differentiation” and “negative regulation of cell differentiation” GO BP Terms. The ribbons indicate which gene belongs to which categories. The middle circle represents logarithm from fold change (LogFC) between before IVM and after IVM respectively. The genes were sorted by logFC from most to least changed gene
Figure 4
Heatmap showing the gene occurrence between differently expressed genes that belongs to the “neuron differentiation” and “negative regulation of cell differentiation” GO BP Terms. The intensity of the color is corresponding to amount of GO BP terms that each gene belongs to
Figure 5
STRING-generated interaction network between genes that belongs to the “neuron differentiation” and “negative regulation of cell differentiation” GO BP Terms. The intensity of the edges reflects the strength of interaction score