MALDI-MSI Tissue Preparation and Annotation

After MALDI-MSI measurements, matrix was removed from tissues by washing in 100% methanol for 2 min. Tissues were stained with hematoxylin and eosin (HE) for pathological evaluation. Whole slide scanning was performed on HE sections for digital evaluation of the tissues using a Ventana DP 200 slide scanner (Roche Diagnostics International AG, Rotkreuz, Switzerland). Representative tumor and stroma regions were annotated on whole slide images using the software QuPath (Bankhead et al. 2017 (link)) and regions were exported for further analysis using the SCiLS Lab export function (Bruker Daltonik GmbH, Bremen, Germany).

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Neumann J.M., Freitag H., Hartmann J.S., Niehaus K., Galanis M., Griesshammer M., Kellner U, & Bednarz H. (2021). Subtyping non-small cell lung cancer by histology-guided spatial metabolomics. Journal of Cancer Research and Clinical Oncology, 148(2), 351-360.

Publication 2021

Ventana DP 200

Diagnostics Eosin Hematoxylin Maldi Methanol Tissues Tumor

Corresponding Organization : Bielefeld University

Other organizations : Medizinische Hochschule Hannover, Johannes Wesling Klinikum Minden

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Variable analysis

independent variables

Removal of matrix from tissues by washing in 100% methanol for 2 min

dependent variables

Pathological evaluation of tissues
Digital evaluation of the tissues using a Ventana DP 200 slide scanner
Annotation of representative tumor and stroma regions on whole slide images using QuPath

control variables

Staining of tissues with hematoxylin and eosin (HE)

controls

No positive or negative controls were explicitly mentioned in the provided information.

Annotations

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