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Gene expression distributions of microarrays in three stages of epilepsy. (A‐C): Representative volcano plots of the microarrays in the acute, latent, and chronic stages ( GSE14763 ). Red points represented up‐regulated genes, while blue points represented down‐regulated genes. Black points indicate genes with no significant difference. (D‐F): <t>Barplots</t> of gene expression distributions of microarrays in the acute, latent, and chronic stages. Numbers of total genes, up‐regulated genes, and down‐regulated genes of each microarray were labeled at the top of the barplots
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Gene expression distributions of microarrays in three stages of epilepsy. (A‐C): Representative volcano plots of the microarrays in the acute, latent, and chronic stages ( GSE14763 ). Red points represented up‐regulated genes, while blue points represented down‐regulated genes. Black points indicate genes with no significant difference. (D‐F): Barplots of gene expression distributions of microarrays in the acute, latent, and chronic stages. Numbers of total genes, up‐regulated genes, and down‐regulated genes of each microarray were labeled at the top of the barplots

Journal: CNS Neuroscience & Therapeutics

Article Title: Bioinformatic analysis identifies key transcriptome signatures in temporal lobe epilepsy

doi: 10.1111/cns.13470

Figure Lengend Snippet: Gene expression distributions of microarrays in three stages of epilepsy. (A‐C): Representative volcano plots of the microarrays in the acute, latent, and chronic stages ( GSE14763 ). Red points represented up‐regulated genes, while blue points represented down‐regulated genes. Black points indicate genes with no significant difference. (D‐F): Barplots of gene expression distributions of microarrays in the acute, latent, and chronic stages. Numbers of total genes, up‐regulated genes, and down‐regulated genes of each microarray were labeled at the top of the barplots

Article Snippet: The scatterplots and barplots were prepared by GraphPad Prism 7 software.

Techniques: Gene Expression, Microarray, Labeling

The protein‐protein interaction (PPI) network analysis was performed using STRING database of differentially expressed genes (DEGs) obtained by robust rank aggregation (RRA) analysis in the three stages of epilepsy. In the PPI network, each node represents a protein encoded by DEGs. The edge between nodes represents the interaction of the proteins. The edges of each RRA gene were counted and ranked. Hub genes were genes with top 5 connectivity. A‐C: PPI network of DEGs in the acute, latent, and chronic stages of epilepsy, respectively. Red indicates the hub genes with the top 5 connectivity. Yellow indicates several important RRA genes with connectivity second to hub genes. Blue represents other RRA genes. D‐F: The barplots of top 30 genes with most connections in the acute and latent stages, and all genes in the chronic stage of epilepsy, respectively. The number labeled at the right side of the barplots represents the edges counts of the DEGs

Journal: CNS Neuroscience & Therapeutics

Article Title: Bioinformatic analysis identifies key transcriptome signatures in temporal lobe epilepsy

doi: 10.1111/cns.13470

Figure Lengend Snippet: The protein‐protein interaction (PPI) network analysis was performed using STRING database of differentially expressed genes (DEGs) obtained by robust rank aggregation (RRA) analysis in the three stages of epilepsy. In the PPI network, each node represents a protein encoded by DEGs. The edge between nodes represents the interaction of the proteins. The edges of each RRA gene were counted and ranked. Hub genes were genes with top 5 connectivity. A‐C: PPI network of DEGs in the acute, latent, and chronic stages of epilepsy, respectively. Red indicates the hub genes with the top 5 connectivity. Yellow indicates several important RRA genes with connectivity second to hub genes. Blue represents other RRA genes. D‐F: The barplots of top 30 genes with most connections in the acute and latent stages, and all genes in the chronic stage of epilepsy, respectively. The number labeled at the right side of the barplots represents the edges counts of the DEGs

Article Snippet: The scatterplots and barplots were prepared by GraphPad Prism 7 software.

Techniques: Labeling

The hub genes associated with seizure frequency and hippocampal sclerosis in patients with temporal lobe epilepsy (TLE). A. Scatter plots showing the correlations between hub genes and seizure frequency in TLE patients in GSE127871 . r = Spearman's rank correlation coefficient between the cpm of genes and seizure frequencies. The dark lines are the regression lines fitted by linear modeling. B. Barplots showing the differential expression of hub genes analyzed by DESeq2 package between the no‐HS and HS groups in TLE patients in GSE71058 . Bottom of each plot showing the P ‐values, FDR‐adjusted P ‐value, and log 2 (fold change (FC)) of genes

Journal: CNS Neuroscience & Therapeutics

Article Title: Bioinformatic analysis identifies key transcriptome signatures in temporal lobe epilepsy

doi: 10.1111/cns.13470

Figure Lengend Snippet: The hub genes associated with seizure frequency and hippocampal sclerosis in patients with temporal lobe epilepsy (TLE). A. Scatter plots showing the correlations between hub genes and seizure frequency in TLE patients in GSE127871 . r = Spearman's rank correlation coefficient between the cpm of genes and seizure frequencies. The dark lines are the regression lines fitted by linear modeling. B. Barplots showing the differential expression of hub genes analyzed by DESeq2 package between the no‐HS and HS groups in TLE patients in GSE71058 . Bottom of each plot showing the P ‐values, FDR‐adjusted P ‐value, and log 2 (fold change (FC)) of genes

Article Snippet: The scatterplots and barplots were prepared by GraphPad Prism 7 software.

Techniques: Quantitative Proteomics