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  Indian J Med Microbiol
 

Figure 5: RT-qPCR verified partial DEGs and PPI. (A) RT-qPCR of the spinal cord tissue was conducted 14 days post-injury. Relative expression was normalized to gapdh levels and to the average expression of uninjured controls. The red border indicates up-regulation in RNA sequencing, and the green border indicates down-regulation in RNA sequencing. Three independent experiments were conducted for each condition, with 10 zebrafish in each group. *P < 0.05, ***P < 0.001 (Student’s t-test). Data were expressed as the mean ± SEM (n = 10). (B) PPI network based on Clasp2. (C) PPI network based on H1m. Green and yellow colors indicate proteins with up-regulated and down-regulated expression, respectively. The node fill color shows the changes in gene expression. The more green the color, the greater the up-regulation post-injury; the more yellow the color, the greater the down-regulation post-injury. The node border paint shows the fragments per kilobase million mapped reads of the gene post-injury. The darker the red, the higher the expression post-injury. The degree of network connectivity is mapped to the size of the node shape. The combined score of the PPI network is mapped to the color of the network connection line. The darker the color, the greater the possibility of interaction. DEG: Differentially expressed gene; PPI: protein-protein interaction; RT-qPCR: real-time quantitative polymerase chain reaction; SCI: spinal cord injury.

<b>Figure 5: RT-qPCR verified partial DEGs and PPI.</b>
(A) RT-qPCR of the spinal cord tissue was conducted 14 days post-injury. Relative expression was normalized to <i>gapdh</i> levels and to the average expression of uninjured controls. The red border indicates up-regulation in RNA sequencing, and the green border indicates down-regulation in RNA sequencing. Three independent experiments were conducted for each condition, with 10 zebrafish in each group. *<i>P</i> < 0.05, ***<i>P</i> < 0.001 (Student’s <i>t</i>-test). Data were expressed as the mean ± SEM (<i>n</i> = 10). (B) PPI network based on Clasp2. (C) PPI network based on H1m. Green and yellow colors indicate proteins with up-regulated and down-regulated expression, respectively. The node fill color shows the changes in gene expression. The more green the color, the greater the up-regulation post-injury; the more yellow the color, the greater the down-regulation post-injury. The node border paint shows the fragments per kilobase million mapped reads of the gene post-injury. The darker the red, the higher the expression post-injury. The degree of network connectivity is mapped to the size of the node shape. The combined score of the PPI network is mapped to the color of the network connection line. The darker the color, the greater the possibility of interaction. DEG: Differentially expressed gene; PPI: protein-protein interaction; RT-qPCR: real-time quantitative polymerase chain reaction; SCI: spinal cord injury.