Journal: NPJ Precision Oncology

Article Title: Deep visual proteomics reveals DNA replication stress as a hallmark of signet ring cell carcinoma

doi: 10.1038/s41698-025-00819-7

Figure Lengend Snippet: a Cell type-specific tissue preparation for the Deep Visual Proteomics (DVP) spatial proteomics pipeline, starting with FFPE tissue sectioning, mounting, staining, and image acquisition. b Representative images of WGA-stained lymph node tissue, showing one raw, one segmented, and one classified image (lymphocytes in pink, SR cells in green and segmentation artifacts in blue). c Export mask of classified SR cells. d Illustration of the semi-automated laser microdissection sample collection, and processing, followed by ( e ) the liquid chromatography-mass spectrometry (LC-MS) setup. Illustrated with BioRender.

Article Snippet: For Wheat Germ Agglutinin (WGA) labeling, sections on membrane PEN slides were incubated with WGA staining solution (Biotium, 29023; diluted 1:1000) in a light-protected environment at 37 °C for 10 min. For pan-cytokeratin (CK), CD8, PD1, PDL1 and pATR staining, antigen retrieval was achieved by immersing the tissue sections on glass slides in EDTA buffer (Sigma, E1161; pH 8.5) at 90 °C for 30 min.

Techniques: Staining, Laser Capture Microdissection, Liquid Chromatography, Mass Spectrometry, Liquid Chromatography with Mass Spectroscopy