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Related Experiment Video

Updated: Jan 7, 2026

Capturing Small Molecule Communication Between Tissues and Cells Using Imaging Mass Spectrometry

Capturing Small Molecule Communication Between Tissues and Cells Using Imaging Mass Spectrometry

Published on: April 3, 2019

Advancing spatial-omics through Pyxis, vendor-neutral software for ion mobility mass spectrometry imaging data

Sara Tortorella¹, Sebastian Bessler², Giuseppe Arturi³

¹Mass Analytica SL, Av. Cerdanyola 92-94, 08173, Sant Cugat del Vallés, Spain. sara.tortorella@mass-analytica.com.

Analytical and Bioanalytical Chemistry

|December 20, 2025

Summary

This summary is machine-generated.

Mass spectrometry imaging (MSI) generates complex data, but ion mobility (IM) spectrometry aids analysis. A new software, Pyxis, is introduced to overcome challenges in IM-MSI data processing for metabolomics.

Keywords:

Chemometrics Ion mobility Mass spectrometry imaging Metabolomics Software and data analysis tools

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Area of Science:

Analytical Chemistry
Metabolomics
Biotechnology

Background:

Mass spectrometry imaging (MSI) enables simultaneous analyte measurement in tissues.
Complex MSI datasets often contain isobaric species, complicating analysis.
Ion mobility (IM) spectrometry enhances MSI by providing an orthogonal separation dimension.

Purpose of the Study:

To discuss the benefits and challenges of ion mobility-mass spectrometry imaging (IM-MSI) data analysis in metabolomics.
To introduce Pyxis, a novel software solution for IM-MSI data analysis.
To demonstrate the capabilities of Pyxis using experimental data.

Main Methods:

Utilized ion mobility spectrometry coupled with mass spectrometry imaging (IM-MSI).
Developed and applied Pyxis, a vendor-neutral software for IM-MSI data analysis.
Analyzed data from mouse kidney tissue and THP-1 monocytes.

Main Results:

IM-MSI provides crucial orthogonal separation for complex MSI datasets.
Challenges in IM-MSI data analysis include data complexity and lack of comprehensive software.
Pyxis effectively processes and visualizes multidimensional IM-MSI data.

Conclusions:

IM-MSI is a powerful technique for metabolomic applications when data analysis challenges are addressed.
Pyxis offers a comprehensive solution for the entire IM-MSI data analysis workflow.
The demonstrated capabilities of Pyxis highlight its potential to advance IM-MSI research.