Journal: Cell Reports Medicine

Article Title: Multimodal immune phenotyping reveals microbial-T cell interactions that shape pancreatic cancer

doi: 10.1016/j.xcrm.2024.101397

Figure Lengend Snippet: T cell and microbial co-localization define distinct cellular neighborhoods in human pancreatic cancer (A) Study design for (B)–(D) (n = 185 for cold nests and n = 77 for hot nests pooled from 16 specimens). (B) Images of CD8 (yellow), CD68 (brown), tumor epithelium (teal, CK19), FOXP3 (purple), and nuclei (blue, hematoxylin). Scale bars, 1 mm (top) and 50 μm (bottom). (C) Quantification of CD8 + (left), FOXP3 + (middle), and CD68 + (right) cells. (D) Ratio of CD8 + cells to FOXP3 + cells. (E) Study design for (F) and (H)–(J). (F) Principal-component analysis (n = 5 for hot and cold tumor nests from 1 specimen). (G) 16S rRNA levels (n = 14 for cold and hot tumor nests from 3 patient specimens). (H and I) Heatmap (H) and enrichment score (I) for the relative expression of genes associated with response to bacterium (GO: 0009617) in hot and cold stroma. (J) Volcano plot of DEGs. (K) Multiplex immunohistochemistry images of CD8 (yellow), PIGR (purple), and nuclei (blue, hematoxylin). (L) Quantification of PIGR (n = 49 for cold nests and n = 46 for hot nests pooled from 7 specimens). (M) Multiplex immunohistochemistry images of CD8 (teal), CD20 (yellow), CD74 (purple), and nuclei (blue, hematoxylin). (N) Quantification of CD74 (n = 71 for cold nests and n = 45 for hot nests pooled from 10 specimens). (O) Summary of cell markers and proteins. For (K) and (M), scale bars, 2 mm (left) and 50 μm (right), and dashed lines indicate tumor epithelium. Statistical significance was calculated using a two-tailed Mann-Whitney test. Data are represented as violin plots (center line, median; top and bottom lines, upper and lower quartiles) and scatterplots (mean + SD or mean). PDAC, pancreatic ductal adenocarcinoma.

Article Snippet: Mouse monoclonal anti-human CD74 (LN2) , Abcam , ab9514; RRID:AB_2075504.

Techniques: Expressing, Multiplex Assay, Immunohistochemistry, Two Tailed Test, MANN-WHITNEY

Journal: Cell Reports Medicine

Article Title: Multimodal immune phenotyping reveals microbial-T cell interactions that shape pancreatic cancer

doi: 10.1016/j.xcrm.2024.101397

Figure Lengend Snippet: T cell infiltration into tumors occurs independent of the gut and tumor microbiome (A) Study design for (B)–(K). (B) 16S rRNA levels in tumor and stool from mice orthotopically injected with cold (69) tumor cells (n = 10) or hot (2838c3) tumor cells and treated with (n = 15) and without (n = 20) antibiotics. (C and D) Quantification of CD3 + (C) and CD8 + and FOXP3 + (D) T cells from hot tumors of mice treated with (n = 19) or without (n = 13) antibiotics. (E) 16S rRNA levels in tumor from mice orthotopically injected with cold (69) tumor cells and treated with (n = 5) and without (n = 5) antibiotics. (F) Quantification of CD8 + and FOXP3 + T cells from cold tumors of mice treated with (n = 5) and without (n = 5) antibiotics. (G) Number of DEGs. (H) Bar graph displaying overrepresentation analysis of DEGs in indicated gene sets. (I and J) Tumor weights at day 20. (K) Quantification of intra-tumoral CD19 + cells. (L and M) Mean fluorescence intensity (MFI) of MHC class II (L) and CD206 (M) on CD11b + F4/80 + intra-tumoral macrophages. Data were pooled from two to three experiments (B–D and J–M) or are representative of two independent experiments (E–I). Statistical significance was calculated using one-way ANOVA with Dunnett’s test (B, L, and M) and a two-tailed Mann-Whitney test (C–F and I–K). Data are represented as scatterplots (mean ± SD). NS, not significant.

Article Snippet: Mouse monoclonal anti-human CD74 (LN2) , Abcam , ab9514; RRID:AB_2075504.

Techniques: Injection, Fluorescence, Two Tailed Test, MANN-WHITNEY

Journal: Cell Reports Medicine

Article Title: Multimodal immune phenotyping reveals microbial-T cell interactions that shape pancreatic cancer

doi: 10.1016/j.xcrm.2024.101397

Figure Lengend Snippet:

Article Snippet: Mouse monoclonal anti-human CD74 (LN2) , Abcam , ab9514; RRID:AB_2075504.

Techniques: Recombinant, Sequencing, Software

Journal: iScience

Article Title: Spatial downregulation of CD74 signatures may drive invasive component development in part-solid lung adenocarcinoma

doi: 10.1016/j.isci.2023.107699

Figure Lengend Snippet: Cell-cell communications with malignant cells (A and B) Ligand-receptor pairs of distinct cell types and MC1 or MC2. (C) Dot plot showing ligand-receptor pair analysis of the interactions between distinct cell types and MC1 or MC2. (D) Co-location of MIF-CD74 ligand-receptor pair on ST sections. (E) Correlation analysis of CD74 expression and CTR. (F) Correlation analysis of CD74 expression and the lepidic or acinar signature. (G–I) Representative images of CD74 staining in two PSN samples. “A” represents adjacent normal tissue, “P” represents the preinvasive region, and “I” represents an invasive region. (J) Kaplan–Meier survival curves of CD74 expression grouped by top 25% and bottom 25% in LUAD patients (from TCGA data and CHOICE data). MIF, macrophage migration inhibitory factor; ST, spatial transcriptomics; CTR, consolidation-to-tumor ratio; LUAD, lung adenocarcinoma.

Article Snippet: Mouse monoclonal [LN2] anti-CD74 , Sigma-Aldrich , RRID: AB_9514.

Techniques: Expressing, Staining, Migration

Journal: iScience

Article Title: Spatial downregulation of CD74 signatures may drive invasive component development in part-solid lung adenocarcinoma

doi: 10.1016/j.isci.2023.107699

Figure Lengend Snippet:

Article Snippet: Mouse monoclonal [LN2] anti-CD74 , Sigma-Aldrich , RRID: AB_9514.

Techniques: Recombinant, Saline, Software