Dataset Information

Mass spectrometry imaging (MSI) combined with LC-MS/MS data from head and neck squamous cell carcinoma (HNSCC) xenograft samples to map peptide information

ABSTRACT: Mass spectrometry imaging (MSI) was used to investigate different tumors regions from five head and neck squamous cell carcinoma (HNSCC) xenograft samples of tumor model CAL33. Specifically, the authors investigated if measurements could be attributed to tumor hypoxia. Hypoxic regions were defined using consecutive tissue slices which were stained with anti-pimonidazole polyclonal antibody. M/z values which were associated to hypoxic regions were converted to masses and mapped with masses from LC-MS/MS experiment. LC-MS/MS experiment was carried out on three different HNSCC xenografts samples from the same tumor model (CAL33).For details see: https://doi.org/10.21203/rs.3.rs-3755587/v1

INSTRUMENT(S): rapifleX, Orbitrap Exploris 480

ORGANISM(S): Homo Sapiens (human) Mus Musculus (mouse)

TISSUE(S): Head And Neck Squamous Cell Carcinoma Cell

DISEASE(S): Head And Neck Squamous Cell Carcinoma

SUBMITTER: Verena Bitto

LAB HEAD: Dr. Ina

PROVIDER: PXD047820 | Pride | 2024-02-28

REPOSITORIES: Pride

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Publications

Enhancing mass spectrometry imaging accessibility using convolutional autoencoders for deriving hypoxia-associated peptides from tumors.

Bitto Verena V Hönscheid Pia P Besso María José MJ Sperling Christian C Kurth Ina I Baumann Michael M Brors Benedikt B

NPJ systems biology and applications 20240527 1

Mass spectrometry imaging (MSI) allows to study cancer's intratumoral heterogeneity through spatially-resolved peptides, metabolites and lipids. Yet, in biomedical research MSI is rarely used for biomarker discovery. Besides its high dimensionality and multicollinearity, mass spectrometry (MS) technologies typically output mass-to-charge ratio values but not the biochemical compounds of interest. Our framework makes particularly low-abundant signals in MSI more accessible. We utilized convolutio ...[more]

PMID: 38802379

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			Action	DRS
	Sample1.ibd	Other
	Sample1.imzML	Other
	Sample1_cal33_6_1_0_15.ibd	Other
	Sample1_cal33_6_1_0_15.imzML	Other
	Sample2.ibd	Other