Journal: Science Advances

Article Title: Chemo-metallo nanodrivers for spatiotemporally controlled in situ vaccination

doi: 10.1126/sciadv.aee4577

Figure Lengend Snippet: ( A ) Volcano plot of differentially expressed genes (DEGs) in MFC cells (Control versus DDP + Zn 2+ ). ( B ) KEGG pathway enrichment of DEGs. ( C ) Quantification of extracellular dsDNA. ( D ) JC-1 staining assessed by fluorescence microscopy and flow cytometry. ( E ) γ-H2AX immunofluorescence staining. Scale bar, 20 μm. ( F ) ASC speck colocalization with AIM2, Caspase-1, Caspase-8, and RIPK1. Scale bars, 5 μm (overview) and 1 μm (enlarged). ( G ) Western blot analysis of necroptosis markers (RIPK1, p-RIPK1, MLKL, and p-MLKL) and PANoptosis-related proteins (AIM2 and ZBP1). ( H ) Western blot analysis of apoptosis executors (Caspase-8, Caspase-3, and cleaved forms). ( I ) Western blot analysis of pyroptosis markers (Caspase-1, GSDMD, and cleaved forms). ( J ) Cell viability after DDP + Zn 2+ combined with VX-765, Ac-DEVD-CHO, or Nec-1. ( K ) PANoptosis-related proteins in si AIM2 cells. ( L and M ) cGAS activity (L) and expression (M) under Zn 2+ treatment. ( N ) Violin plot of cGAS expression. ( O ) Western blot analysis of STING pathway (STING, p-STING, TBK1, p-TBK1, IRF3, and p-IRF3). ( P ) CIBERSORT analysis of immune cell infiltration. ( Q ) BMDC maturation (CD80 + CD86 + ) after different treatments. ( R ) Schematic of the DDP + Zn 2+ –induced ICD. Data in (C), (J), and (L) are mean ± SD. Statistical analysis for (C), (J), (L), (N), and (P) used a two-tailed unpaired Student’s t test. (R) was created in BioRender. Fei, G. (2026) https://BioRender.com/8ri399r . * P < 0.05.

Article Snippet: The pharmacological inhibitors VX-765, Ac-DEVD-CHO, and Nec-1 were purchased from MedChemExpress (USA).

Techniques: Control, Staining, Fluorescence, Microscopy, Flow Cytometry, Immunofluorescence, Western Blot, Analysis, Activity Assay, Expressing, Immune Cell, Two Tailed Test

Journal: Genes to Cells

Article Title: A YAP – TEAD – CTCF Transcriptional Regulatory Axis Associated With the Elimination of Injured Hepatocytes From the Liver

doi: 10.1111/gtc.70150

Figure Lengend Snippet: Transcriptome analyses of livers and hepatocytes following YAP induction by AAV or HTVi. (a) Schematic overview of the RNA‐seq workflow for whole liver RNA‐seq (left) and sorted hepatocyte RNA‐seq (right). For sorted RNA‐seq, hepatocytes were isolated by collagenase perfusion and hepatocyte fractionation, followed by purification of live hepatocytes and FACS sorting of tdTomato‐positive hepatocytes. Liver tissues or sorted hepatocytes were collected 3 days after YAP induction and subjected to RNA‐seq analysis. (b) Unsupervised hierarchical clustering heatmap of whole liver RNA‐seq data using differentially expressed genes (DEGs) across the indicated groups (No treatment, HTVi‐empty, HTVi‐YAP, and AAV‐YAP). Red and blue indicate relatively high and low expression, respectively. (c) Venn diagram showing the overlap of significantly upregulated genes (fold change > 2, p < 0.05) in the AAV‐YAP and HTVi‐YAP groups compared with the no‐treatment control group in whole liver RNA‐seq. (d) Unsupervised hierarchical clustering heatmap of sorted hepatocyte RNA‐seq data using DEGs across the indicated groups (No treatment, HTVi‐empty, HTVi‐YAP, and AAV‐YAP). Red and blue indicate relatively high and low expression, respectively. (e) Venn diagram showing the overlap of significantly upregulated genes (fold change > 2, p < 0.05) in the AAV‐YAP and HTVi‐YAP groups compared with the no‐treatment control group in sorted hepatocyte RNA‐seq. (f) Venn diagram showing the overlap of HTVi‐specifically upregulated genes between whole RNA‐seq analysis and sort RNA‐seq analysis. (g) Reactome pathway analysis of genes commonly upregulated in the HTVi‐YAP group in both whole liver and sorted hepatocyte RNA‐seq datasets. The x ‐axis indicates −log10 (adjusted p value), dot size represents gene count, and color intensity indicates z‐score. (h–j) qPCR validation of representative genes associated with the indicated Reactome pathway terms: Cell cycle checkpoints (h), RHO GTPase effectors (i), and Immunoregulatory interactions between a lymphoid and a nonlymphoid cell (j). Relative mRNA expression was normalized to Gapdh . Data are shown as mean ± SD ( n = 3).

Article Snippet: cDNA was synthesized using ReverTra Ace qPCR RT Master Mix (Toyobo, Osaka, Japan).

Techniques: RNA Sequencing, Isolation, Fractionation, Purification, Analysis, Expressing, Control, Biomarker Discovery