Journal: Cell & Bioscience

Article Title: Multi-omics analysis unveiled fibroblast-mediated pathogenesis in male genital lichen sclerosus

doi: 10.1186/s13578-025-01453-3

Figure Lengend Snippet: The sub-clustering of fibroblasts revealed unique patterns of interaction with T cells and keratinocytes. A .The gene expression of COL1A1, COL1A2, COL6A1, COL6A2, and CD44 in fibroblasts and T cells. B .The gene expression of APP and CD74 in fibroblasts and keratinocytes. C .The sub-clustering of fibroblasts. D .The plot of DEGs between the fibroblasts in the normal group and those in the LS group. The grey dashed lines indicated the log2-fold change of 0.25 and − 0.25. E .The mIHC images demonstrated a strong interaction (COL1A1-CD44) between the fibroblasts (COL1A1+) and the T cells (CD3E+). Scale bar: 100 μm. F .The volcano plot of the top DEGs in each sub-cluster of fibroblasts. G .The sub-clustering criteria of fibroblasts according to the four DEGs (MDK, COL1A1, CXCL12, and ANGPTL1) provided in Fig. 5D. +/-: significant with log2-fold change > 0.25; ++/--: significant with log2-fold change > 0.5; +++/---: significant with log2-fold change > 0.75; ++++/----: significant with log2-fold change > 1; +++++/-----: significant with log2-fold change > 2; /: in significant. H . The communication pattern annotation of fibroblasts. DEGs: differentially expressed genes; Log2FC: log2-fold change; mIHC: multiplex immunohistochemistry

Article Snippet: The primary antibodies included: ELN (1:50 dilution, Cat# sc-58756, Santa Cruz Biotechnology, Inc.); COL1A1 (1:200 dilution, Cat# ab34710, Abcam plc.); COL6A1 (1:100 dilution, Cat# A9738, ABclonal Technology Co., Ltd.); CD44 (1:100 dilution, Cat# 37259, Cell Signaling Technology, Inc.); CD3E (1:150 dilution, Cat# ab16669, Abcam plc.); LAG3 (1:200 dilution, Cat# 15372, Cell Signaling Technology, Inc.); APP (1:100 dilution, Cat# 193895, Cell Signaling Technology, Inc.); CD74 (1:250 dilution, Cat# 772745, Cell Signaling Technology, Inc.); and KRT15 (1:200 dilution, Cat# 60247-1-Ig, Proteintech Group, Inc.).

Techniques: Gene Expression, Multiplex Assay, Immunohistochemistry

Journal: Cell & Bioscience

Article Title: Multi-omics analysis unveiled fibroblast-mediated pathogenesis in male genital lichen sclerosus

doi: 10.1186/s13578-025-01453-3

Figure Lengend Snippet: Sub-cluster analysis of keratinocytes delineated a unique subtype in interaction with fibroblasts via the APP-CD74 pathway. A .The sub-clustering of keratinocytes among the three groups. B .The dot plot of the expression of the epithelial markers in the keratinocyte sub-clusters. C .The subtype annotation of keratinocytes among the three groups. D .The proportion analysis of the annotated keratinocyte subtypes and sample groups. E .The expression profile of CD74 among the keratinocyte subtypes of the three groups. F .The mIHC images demonstrated a robust interaction (APP-CD74) between the fibroblasts (COL6A1+) and the keratinocytes (KRT15+). Scale bar: 40 μm. mIHC: multiplex immunohistochemistry

Article Snippet: The primary antibodies included: ELN (1:50 dilution, Cat# sc-58756, Santa Cruz Biotechnology, Inc.); COL1A1 (1:200 dilution, Cat# ab34710, Abcam plc.); COL6A1 (1:100 dilution, Cat# A9738, ABclonal Technology Co., Ltd.); CD44 (1:100 dilution, Cat# 37259, Cell Signaling Technology, Inc.); CD3E (1:150 dilution, Cat# ab16669, Abcam plc.); LAG3 (1:200 dilution, Cat# 15372, Cell Signaling Technology, Inc.); APP (1:100 dilution, Cat# 193895, Cell Signaling Technology, Inc.); CD74 (1:250 dilution, Cat# 772745, Cell Signaling Technology, Inc.); and KRT15 (1:200 dilution, Cat# 60247-1-Ig, Proteintech Group, Inc.).

Techniques: Expressing, Multiplex Assay, Immunohistochemistry

Journal: Cell & Bioscience

Article Title: Multi-omics analysis unveiled fibroblast-mediated pathogenesis in male genital lichen sclerosus

doi: 10.1186/s13578-025-01453-3

Figure Lengend Snippet: Trajectory analysis delineated type I keratinocytes as a pivotal sub-cluster in the initiation of epidermal hyperkeratosis of LS disease. A .The pseudotime analysis of keratinocytes. B .The scGSEA to explore the differential functions of type I keratinocytes in the LS group compared with those in the normal group. C .The scGSEA to explore the differential functions of type II keratinocytes in the LS group compared with those in the normal group. D .The DEGs along the developmental trajectory of keratinocyte sub-clusters. DEGs: differentially expressed genes; scGSEA: single-cell gene set enrichment analysis; Adj. P-val: adjusted P value

Article Snippet: The primary antibodies included: ELN (1:50 dilution, Cat# sc-58756, Santa Cruz Biotechnology, Inc.); COL1A1 (1:200 dilution, Cat# ab34710, Abcam plc.); COL6A1 (1:100 dilution, Cat# A9738, ABclonal Technology Co., Ltd.); CD44 (1:100 dilution, Cat# 37259, Cell Signaling Technology, Inc.); CD3E (1:150 dilution, Cat# ab16669, Abcam plc.); LAG3 (1:200 dilution, Cat# 15372, Cell Signaling Technology, Inc.); APP (1:100 dilution, Cat# 193895, Cell Signaling Technology, Inc.); CD74 (1:250 dilution, Cat# 772745, Cell Signaling Technology, Inc.); and KRT15 (1:200 dilution, Cat# 60247-1-Ig, Proteintech Group, Inc.).

Techniques:

Journal: Cells

Article Title: The Properties of Proinflammatory Ly6C hi Monocytes Are Differentially Shaped by Parasitic and Bacterial Liver Infections.

doi: 10.3390/cells11162539

Figure Lengend Snippet: Figure 4. Marked differences in expression of surface markers by Ly6Chi monocytes after infection with E. histolytica or L. monocytogenes (A) Heatmap depicting differential expression of mRNA encod- ing selected markers on the surface of liver Ly6Chi monocytes after infection with E. histolytica (E. his) or L. monocytogenes (L. m). (B) Normalized mRNA counts of selected surface marker genes (from transcriptome analysis). (C) Percentage of CD14+, CD38+, CD74+, and CD86+ Ly6Chi monocytes dur- ing the course of infection at the indicated time points post-infection (measured by flow cytometry). (D) Histogram and MFI of CD14+, CD38+, CD74+, and CD86+ Ly6Chi monocytes during the course of infection. Data in C were pooled from three independent experiments. Data in D are representative of one of these three experiments and all data are presented as the mean ± SEM (* p < 0.05; ** p < 0.01; *** p < 0.001, **** p < 0.0001; Mann-Whitney U test).

Article Snippet: The following antibodies were used: CD45.1 BUV395 (A20) (Becton Dickinson); CD11b BV510 (M1/70), CD14 BV421 (1Sa142), CD38 PeCy7 (90), CD45.2 PeCy5 (30-F11), CD74 AF647 (In1/CD74), CD86 AF700 (GL-1), Ly6C FITC/PE (HK1-4), Ly6G BV785 (1A8) (BioLegend); IRF2 AF488 (sc-374327) and mafb PerCP (OTI1E9) (Novus Biologicals).

Techniques: Expressing, Infection, Quantitative Proteomics, Marker, Cytometry, MANN-WHITNEY

Journal: Cells

Article Title: The Properties of Proinflammatory Ly6C hi Monocytes Are Differentially Shaped by Parasitic and Bacterial Liver Infections.

doi: 10.3390/cells11162539

Figure Lengend Snippet: Figure 5. New Ly6Chi monocyte subsets identified according to expression of selected surface markers and IRF2. (A) Gating strategy, histogram, and percentage of IRF2+ Ly6Chi monocytes from livers of naïve mice and from E. histolytica- and L. monocytogenes-infected mice on day 3 post infecion. (B) Gating strategy (exemplary for CD14+ gated cells) based on the FMO control to determine CD14+, CD38+, CD74+, and CD86+ monocytes within the IRF2+ Ly6Chi monocyte population from naïve mice and from both infection models on day 3 post infection. (C) UMAP plots of Ly6Chi

Article Snippet: The following antibodies were used: CD45.1 BUV395 (A20) (Becton Dickinson); CD11b BV510 (M1/70), CD14 BV421 (1Sa142), CD38 PeCy7 (90), CD45.2 PeCy5 (30-F11), CD74 AF647 (In1/CD74), CD86 AF700 (GL-1), Ly6C FITC/PE (HK1-4), Ly6G BV785 (1A8) (BioLegend); IRF2 AF488 (sc-374327) and mafb PerCP (OTI1E9) (Novus Biologicals).

Techniques: Expressing, Infection, Control