Journal: iScience

Article Title: APOE4 drives widespread changes to the hepatic proteome and alters metabolic function

doi: 10.1016/j.isci.2026.115035

Figure Lengend Snippet: Whole liver proteomics in female and male APOE3 and APOE4 mice (A) Study schematic showing primary outcomes in APOE -targeted replacement (TR) mice. n = 3 mice per group for all mouse proteomic outcomes. (B) APOE protein expression from whole liver measured via ELISA in male and female APOE3 and APOE4 mice. Statistical significance was determined by two-way ANOVA. Data are presented as mean ± SD. n = 8 mice per genotype and sex. (C) The number of differentially expressed (DE) proteins in male and female APOE3 and APOE4 mice. (D) Volcano plot showing upregulated and downregulated proteins in female APOE4 vs. APOE3 mice. (E) IPA pathway showing top 5 upregulated and downregulated pathways in female APOE4 vs. APOE3 mice. (F) Volcano plot showing upregulated and downregulated proteins in male APOE4 vs. APOE3 mice. (G) IPA pathway analysis showing top 5 upregulated and downregulated pathways in male APOE4 vs. APOE3 mice. (H) Heatmap of proteins involved in fatty acid metabolism, cholesterol and bile acid metabolism, lipid transport, and lipid storage showing upregulated and downregulated proteins between APOE4 and APOE3 mice. (I) Venn diagram showing the number of shared upregulated proteins between comparisons of female APOE4 vs. APOE3 mice and male APOE4 vs. APOE3 mice. (J) Venn diagram showing the number of downregulated proteins shared between comparisons of female APOE4 vs. APOE3 mice and male APOE4 vs. APOE3 mice. (K) Violin plot showing normalized Pgam1 protein expression from liver proteomics in male and female APOE3 and APOE4 mice. Statistical significance was determined by two-way ANOVA with Fisher’s LSD post hoc. ∗ p < 0.05. G, genotype. n = 3 mice per genotype and sex. See also .

Article Snippet: Primary antibodies included ALB (Abcam, ab207327), APOE (Abcam, ab183597), ASGR1 (Abcam, ab254261), CS (Cell Signaling, #14309), CYP27A1 (Abcam, ab126785), FDFT1 (Proteintech, 83020-1-RR), HDAC1 (Cell Signaling, #34589), HK1 (Cell Signaling, #2024), HNF4A (Abcam, ab92378), NANOG (Abcam, ab109250), OCT4 (Abcam, ab181557), PGAM1 (Cell Signaling, #12098), and SOX17 (Abcam, ab224637).

Techniques: Expressing, Enzyme-linked Immunosorbent Assay

Journal: iScience

Article Title: APOE4 drives widespread changes to the hepatic proteome and alters metabolic function

doi: 10.1016/j.isci.2026.115035

Figure Lengend Snippet: Comparative proteomic analysis of whole mouse livers and iHLCs (A) Venn diagram depicting overlap of significant DE proteins in APOE4 vs. APOE3 across whole mouse livers and iHLCs (batch 1 and 2). (B) Gene Ontology Biological Process (GO-BP) and KEGG pathway analysis of the 70 proteins shared across mouse liver and iHLCs, showing protein counts per category. (C) Heatmap of proteins consistently upregulated or downregulated in APOE4 vs. APOE3 across whole mouse liver and iHLCs (batch 1 and 2). (D–E) Western blot analysis of CYP27A1, FDFT1, and PGAM1 in APOE4 and APOE3 whole mouse livers, with relative densitometry quantification. n = 16 per group. (F–G) Western blot analysis of CYP27A1, FDFT1, and PGAM1 in APOE4 and APOE3 isogenic iHLCs, with relative densitometry quantification. n = 6 per group. (E and G) Statistical significance was determined by unpaired t test. Data are shown as mean ± SD. ∗ p < 0.05.

Article Snippet: Primary antibodies included ALB (Abcam, ab207327), APOE (Abcam, ab183597), ASGR1 (Abcam, ab254261), CS (Cell Signaling, #14309), CYP27A1 (Abcam, ab126785), FDFT1 (Proteintech, 83020-1-RR), HDAC1 (Cell Signaling, #34589), HK1 (Cell Signaling, #2024), HNF4A (Abcam, ab92378), NANOG (Abcam, ab109250), OCT4 (Abcam, ab181557), PGAM1 (Cell Signaling, #12098), and SOX17 (Abcam, ab224637).

Techniques: Western Blot