Batch correction for large-scale mass spectrometry imaging experiments

bioRxiv (Cold Spring Harbor Laboratory) 2026 Preprint Open access

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Authors: Andreas Abildskov Thomsen, Ole Nørregaard Jensen
DOI: 10.64898/2026.01.30.702769
Cited by: 1
References: 20

Abstract

Summary We assess batch correction methods for MALDI mass spectrometry imaging experiments. ComBAT reduced batch-related technical variance, maintained biological variation, and improved the overall score by 19.4%. Availability and implementation Methods are available in R. comBAT is used through the “sva” package while Harmony, CCA, FastMNN are available in the “Seurat” package https://github.com/satijalab/seurat . scVI, scANVI are Scanorama are available in the Python programming language and through github: https://github.com/scverse/scvi-tools .

Fields of Study & Subjects

Mass Spectrometry Techniques and Applications Advanced Proteomics Techniques and Applications Ion-surface interactions and analysis

Publication details

Journal / source
bioRxiv (Cold Spring Harbor Laboratory)
Publisher
openRxiv
Publication date
2 February 2026
Document type
Preprint