geomx spatial transcriptomics platform  (Spatial Transcriptomics Inc)

Journal: bioRxiv

Article Title: Multiomic analysis identifies suppressive myeloid cell populations in human TB granulomas

doi: 10.1101/2025.03.10.642376

Figure Lengend Snippet: Representative H&E images of granulomas from A) Case 3, B) Case 2, and C) Case 4 showing a range of granuloma morphology with D) necrotizing granulomas, E) cellular non-necrotizing granulomas, and F) small, lymphocyte rich granulomas as assessed by a pulmonary pathologist using traditional morphological annotation. Regions of interest (ROIs) ( G-K ) were selected based on morphological and fluorescence staining for DNA (blue), CD3 (green), CD68/CD163 (red), and vimentin (yellow). ROIs bordering necrotic (G) granulomas and (H) solid or cellular granulomas were selected in addition to tertiary lymphoid structures (I), lymph node (J), and uninvolved lung (K) for spatial transcriptional profiling using the human whole transcriptome probe set using GeoMx (Bruker).

Article Snippet: Due to the limited data on the functional role and significance of MDSCs in TB infected lung tissues, we used an unbiased spatial whole transcriptome analysis (WTA) platform (GeoMx, Bruker, Inc) integrated with single-cell immunophenotyping via highly multiplexed tissue cyclic immunofluorescence (CyCIF) to initiate this study of human TB.

Techniques: Fluorescence, Staining