spatial transcriptomics heatmaps  (Spatial Transcriptomics Inc)

Journal: Redox Biology

Article Title: FOS and JUN regulate oxidative stress and steroidogenesis in human aldosterone-producing adenomas

doi: 10.1016/j.redox.2025.103982

Figure Lengend Snippet: Identification of oxidative stress-responsive genes FOS and JUN in human adrenocortical cells A . Gene set variation analysis (GSVA) of hallmark pathways in APAs and adjacent tissues based on integrated datasets ( GSE60042 , GSE64957 , and GSE156931 ). B . Oxidative stress-related pathways identified by gene set enrichment analysis (GSEA) of APAs versus adjacent tissues, based on integrated datasets ( GSE60042 , GSE64957 , and GSE156931 ). C and D . Volcano plots of RNA sequencing data showing differentially expressed genes (DEGs) in HAC15 adrenocortical cells treated with 4 μM RSL-3 (oxidative stressor via GPX4 inhibition and lipid peroxidation) or 250 μM H 2 O 2 (direct oxidant) for 3h vs. DMSO-treated controls (n = 3 biological replicates). Dashed lines: adjusted p < 0.05; |log2 fold change| > 1. E . Venn diagram identifying overlapping DEGs between RSL-3/H 2 O 2 -treated HAC15 cells and spatial transcriptomics (ST) data from aldosterone-producing adenomas (APAs, n = 7) vs. paired adjacent adrenal cortex. F . Gene Ontology (GO) enrichment of overlapping genes in Panel B, highlighting oxidative stress and steroidogenic pathways. NES, normalized enrichment score; FDR, false discovery rate; NS, not significant.

Article Snippet: B . Spatial transcriptomics heatmaps of FOS, JUN, CYP11B2, and KCNJ5 across APA-adrenal cortex pairs (n = 7).

Techniques: RNA Sequencing, Inhibition

Journal: Redox Biology

Article Title: FOS and JUN regulate oxidative stress and steroidogenesis in human aldosterone-producing adenomas

doi: 10.1016/j.redox.2025.103982

Figure Lengend Snippet: Validation of FOS and JUN expression and oxidative stress activity in APAs and paired adjacent adrenal tissues A. Boxplots showing the expression levels of CYP11B2 , FOS , and JUN across APAs and paired adjacent adrenal tissues, integrating data from GSE60042 , GSE64957 , and GSE156931 . B . Spatial transcriptomics heatmaps of FOS, JUN, CYP11B2, and KCNJ5 across APA-adrenal cortex pairs (n = 7). C . Representative Spatial transcriptomics expression maps of CYP11B2 , FOS , and JUN in KCNJ5 -mutant ( KCNJ5 MUT ) vs. wild-type APAs ( KCNJ5 WT ) and adjacent tissues. D . Integrated UMAP embedding and boxplot showing the distribution of oxidative stress scores in seven APAs and their paired adjacent tissues. E . Representative spatial feature plots of oxidative stress scores projected onto H&E-stained APA and paired adjacent tissue sections. F and G . Gene expression analysis of FOS and JUN in APAs and paired adjacent adrenal tissues from 10 KCNJ5 -mutant and 10 wild-type APA patients. *P < 0.05, **P < 0.01, ***P < 0.001.

Article Snippet: B . Spatial transcriptomics heatmaps of FOS, JUN, CYP11B2, and KCNJ5 across APA-adrenal cortex pairs (n = 7).

Techniques: Biomarker Discovery, Expressing, Activity Assay, Mutagenesis, Staining, Gene Expression

Journal: Nature Neuroscience

Article Title: Early alterations in the MCH system link aberrant neuronal activity and sleep disturbances in a mouse model of Alzheimer’s disease

doi: 10.1038/s41593-023-01325-4

Figure Lengend Snippet: a , Heatmap showing scaled expression of DE genes (in Spatial Transcriptomics) that appear in at least one of four homeostatic plasticity datasets – . Columns represent tissue domains (TD) taken from the SP layer of CA1 region, from multiple tissue slides of 2 App NL-G-F mice and 2 Wt mice at 3.5 months (mouse genotypes are shown as colored bars across the top). Mouse information metadata is available in Supplementary Table . b , Sunburst visualization of Synaptic Gene Ontology (SynGO) enriched ontology terms on the top 200 DE genes (based on p-value), using a one-sided Fisher’s Exact Test, colored by -log10 FDR (False Discovery Rate). c,d,e,f , Spatial Transcriptomics performed on coronal mouse sections of Wt and App NL-G-F brains at 3.5 and 18 months. Tissue domains (TD) from CA1 pyramidal layer and LHA were selected and Pmch and Mchr1 mRNA levels analyzed. Number of TDs in CA1 pyramidal layer: 3.5 months - Wt n = 33, App NL-G-F n = 42 ( Pmch p = 0.0001, Mchr1 p = 0.0318); 18 months - Wt n = 25, App NL-G-F n = 25; Number of TDs in LHA: 3.5 months - Wt n = 418, App NL-G-F n = 383 ( Pmch p = 0.0001); 18 months - Wt n = 280, App NL-G-F n = 365; EdgeR’s quasi-likelihood F-test (*p < 0.05, ****p < 0.0001). Boxplots show medians, interquartile ranges and minimum/maximum values (up to 1.5 x interquartile range) of log2 normalised expression per TD.

Article Snippet: Extended Data Fig. 3 Transcriptional alterations in the App NL-G-F mice. a , Heatmap showing scaled expression of DE genes (in Spatial Transcriptomics) that appear in at least one of four homeostatic plasticity datasets – .

Techniques: Expressing