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timstof flex  (Bruker Corporation)


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    Structured Review

    Bruker Corporation timstof flex
    (A) Shows the schematic workflow used using ESCDAT. <t>First</t> <t>MALDI-MSI</t> <t>(TimsTOF</t> fleX) and spatial transcriptomics (Xenium) are sequentially conducted on the same tissue section. Afterwards, using ESCDAT, a low mass resolution dataset is spatially aligned with the spatial transcriptomics data. Using fiducial markers and visible laser spots in the tissue generated via the MALDI laser. Using the cell boundaries from the cell segmentation staining, pixels per cell are averaged and a high-resolution m/z spectrum is created per cell. These data modalities are afterwards combined, and downstream analysis are performed using Seurat V5 and Python. (B) Visualization of coregistration MALDI-MSI with spatial transcriptomics. (I) A representative m/z ion map from MALDI-MSI showing the spatial distribution of a selected molecule across the tissue. (II) Fluorescence image of the same section with labeled markers as reference. (III-IV) Zoom into the red-boxed region: (III) MALDI-MSI view of a sharp fiducial marker corner; (IV) matching fluorescence view with the laser-ablation dots used as fiducials. (V) Overlay of MALDI sampling points (red circles) on the fluorescence image after coregistration. (VI) Final overlay of MALDI-MSI data withcell-boundary segmentation from spatial transcriptomics, demonstrating precise multimodal alignment.
    Timstof Flex, supplied by Bruker Corporation, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/timstof+flex/bio_rxiv__2025__07__16__665110-150-6-8?v=Bruker+Corporation
    Average 90 stars, based on 1 article reviews
    timstof flex - by Bioz Stars, 2026-07
    90/100 stars

    Images

    1) Product Images from "One Section, Two Worlds: Single-Cell Integration of MALDI-MSI and Spatial Transcriptomics on the Same Single Tissue Section"

    Article Title: One Section, Two Worlds: Single-Cell Integration of MALDI-MSI and Spatial Transcriptomics on the Same Single Tissue Section

    Journal: bioRxiv

    doi: 10.1101/2025.07.16.665110

    (A) Shows the schematic workflow used using ESCDAT. First MALDI-MSI (TimsTOF fleX) and spatial transcriptomics (Xenium) are sequentially conducted on the same tissue section. Afterwards, using ESCDAT, a low mass resolution dataset is spatially aligned with the spatial transcriptomics data. Using fiducial markers and visible laser spots in the tissue generated via the MALDI laser. Using the cell boundaries from the cell segmentation staining, pixels per cell are averaged and a high-resolution m/z spectrum is created per cell. These data modalities are afterwards combined, and downstream analysis are performed using Seurat V5 and Python. (B) Visualization of coregistration MALDI-MSI with spatial transcriptomics. (I) A representative m/z ion map from MALDI-MSI showing the spatial distribution of a selected molecule across the tissue. (II) Fluorescence image of the same section with labeled markers as reference. (III-IV) Zoom into the red-boxed region: (III) MALDI-MSI view of a sharp fiducial marker corner; (IV) matching fluorescence view with the laser-ablation dots used as fiducials. (V) Overlay of MALDI sampling points (red circles) on the fluorescence image after coregistration. (VI) Final overlay of MALDI-MSI data withcell-boundary segmentation from spatial transcriptomics, demonstrating precise multimodal alignment.
    Figure Legend Snippet: (A) Shows the schematic workflow used using ESCDAT. First MALDI-MSI (TimsTOF fleX) and spatial transcriptomics (Xenium) are sequentially conducted on the same tissue section. Afterwards, using ESCDAT, a low mass resolution dataset is spatially aligned with the spatial transcriptomics data. Using fiducial markers and visible laser spots in the tissue generated via the MALDI laser. Using the cell boundaries from the cell segmentation staining, pixels per cell are averaged and a high-resolution m/z spectrum is created per cell. These data modalities are afterwards combined, and downstream analysis are performed using Seurat V5 and Python. (B) Visualization of coregistration MALDI-MSI with spatial transcriptomics. (I) A representative m/z ion map from MALDI-MSI showing the spatial distribution of a selected molecule across the tissue. (II) Fluorescence image of the same section with labeled markers as reference. (III-IV) Zoom into the red-boxed region: (III) MALDI-MSI view of a sharp fiducial marker corner; (IV) matching fluorescence view with the laser-ablation dots used as fiducials. (V) Overlay of MALDI sampling points (red circles) on the fluorescence image after coregistration. (VI) Final overlay of MALDI-MSI data withcell-boundary segmentation from spatial transcriptomics, demonstrating precise multimodal alignment.

    Techniques Used: Generated, Staining, Fluorescence, Labeling, Marker, Sampling



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    Image Search Results


    (A) Shows the schematic workflow used using ESCDAT. First MALDI-MSI (TimsTOF fleX) and spatial transcriptomics (Xenium) are sequentially conducted on the same tissue section. Afterwards, using ESCDAT, a low mass resolution dataset is spatially aligned with the spatial transcriptomics data. Using fiducial markers and visible laser spots in the tissue generated via the MALDI laser. Using the cell boundaries from the cell segmentation staining, pixels per cell are averaged and a high-resolution m/z spectrum is created per cell. These data modalities are afterwards combined, and downstream analysis are performed using Seurat V5 and Python. (B) Visualization of coregistration MALDI-MSI with spatial transcriptomics. (I) A representative m/z ion map from MALDI-MSI showing the spatial distribution of a selected molecule across the tissue. (II) Fluorescence image of the same section with labeled markers as reference. (III-IV) Zoom into the red-boxed region: (III) MALDI-MSI view of a sharp fiducial marker corner; (IV) matching fluorescence view with the laser-ablation dots used as fiducials. (V) Overlay of MALDI sampling points (red circles) on the fluorescence image after coregistration. (VI) Final overlay of MALDI-MSI data withcell-boundary segmentation from spatial transcriptomics, demonstrating precise multimodal alignment.

    Journal: bioRxiv

    Article Title: One Section, Two Worlds: Single-Cell Integration of MALDI-MSI and Spatial Transcriptomics on the Same Single Tissue Section

    doi: 10.1101/2025.07.16.665110

    Figure Lengend Snippet: (A) Shows the schematic workflow used using ESCDAT. First MALDI-MSI (TimsTOF fleX) and spatial transcriptomics (Xenium) are sequentially conducted on the same tissue section. Afterwards, using ESCDAT, a low mass resolution dataset is spatially aligned with the spatial transcriptomics data. Using fiducial markers and visible laser spots in the tissue generated via the MALDI laser. Using the cell boundaries from the cell segmentation staining, pixels per cell are averaged and a high-resolution m/z spectrum is created per cell. These data modalities are afterwards combined, and downstream analysis are performed using Seurat V5 and Python. (B) Visualization of coregistration MALDI-MSI with spatial transcriptomics. (I) A representative m/z ion map from MALDI-MSI showing the spatial distribution of a selected molecule across the tissue. (II) Fluorescence image of the same section with labeled markers as reference. (III-IV) Zoom into the red-boxed region: (III) MALDI-MSI view of a sharp fiducial marker corner; (IV) matching fluorescence view with the laser-ablation dots used as fiducials. (V) Overlay of MALDI sampling points (red circles) on the fluorescence image after coregistration. (VI) Final overlay of MALDI-MSI data withcell-boundary segmentation from spatial transcriptomics, demonstrating precise multimodal alignment.

    Article Snippet: MALDI-MSI analysis was performed on a timsTOF flex (Bruker Daltonics GmbH, Germany).

    Techniques: Generated, Staining, Fluorescence, Labeling, Marker, Sampling