gene expression volcano plots graphpad prism 8  (GraphPad Software Inc)

Journal: Frontiers in Oncology

Article Title: Identification of risk factors for high-risk dedifferentiation in papillary thyroid carcinoma and construction of discriminative model

doi: 10.3389/fonc.2025.1535966

Figure Lengend Snippet: The potential genes and pathways exploration associated with the dedifferentiation. Volcano plots show the differentially expressed genes (DEGs). (A) The restricted cubic spline (RCS) analysis between nomogram point and dedifferentiation; (B) DGE1: DEGs between the high and low-risk dedifferentiation samples; (C) DGE2: DEGs between the high and low nomogram point samples; (D) Venn diagram shows the overlapping DEGs in DGE1 and DGE2.

Article Snippet: Gene expression volcano plots were created with Graphpad Prism 8.

Techniques:

Journal: Cancers

Article Title: Vitamin A Rich Diet Diminishes Early Urothelial Carcinogenesis by Altering Retinoic Acid Signaling

doi: 10.3390/cancers12071712

Figure Lengend Snippet: Differential expression of genes involved in retinoic acid signaling in mouse bladder tissue following BBN treatment and vitamin A rich diet. Comparisons of NT ( n = 9), BBN ( n = 9), and BBN + VitA ( n = 9) groups of animals. ( A ) Heatmap representation of fold change in gene expression in BBN vs. NT and BBN + VitA vs. NT. ( B , C ) Volcano plots showing comparison of BBN vs. NT and BBN + VitA vs. NT. For each group, three cDNAs, each containing RNA from three different mice, were used. Significantly affected gene expression with fold change greater then 2, upregulated or downregulated, is marked in red or blue, respectively ( p value < 0.05; tested by two-sided Student’s t -test). FC, fold change.

Article Snippet: Data are expressed as Log2 fold change (FC) in heatmap and volcano plots using GraphPad Prism 8.

Techniques: Quantitative Proteomics, Gene Expression, Comparison

Journal: Cancers

Article Title: Vitamin A Rich Diet Diminishes Early Urothelial Carcinogenesis by Altering Retinoic Acid Signaling

doi: 10.3390/cancers12071712

Figure Lengend Snippet: Differential expression of genes involved in retinoic acid signaling in mouse bladder tissue after BBN treatment with or without vitamin A rich diet. Comparisons of NT ( n = 9), VitA ( n = 9), BBN + VitA ( n = 9), and BBN ( n = 9) groups. ( A ) Heatmap representation of fold change in gene expression in VitA vs. NT and BBN + VitA vs. BBN groups. ( B , C ) Volcano plots showing comparison of VitA vs. NT and BBN + VitA vs. BBN groups. For each group, three cDNAs, each containing RNA from three different mice, were used. Significantly affected gene expression with fold change greater then 2, upregulated or downregulated, is marked in red or blue, respectively ( p value < 0.05; tested by two-sided Student’s t test). FC, fold change.

Article Snippet: Data are expressed as Log2 fold change (FC) in heatmap and volcano plots using GraphPad Prism 8.

Techniques: Quantitative Proteomics, Gene Expression, Comparison