Mass Spectrometry Imaging Revealed Sulfatides Depletion in Brain Tissues of Rats Exposed in Real Air with High Fine Particulate Matter

Diao, Xin; Xie, Chengyi; Xie, Guangshan; Liang, Yanshan; Li, Ruijin; Dong, Chuan; Zhu, Lin; Wang, Jianing; Cai, Zongwei

doi:10.1021/acs.estlett.2c00615

Cited by 6 publications

(1 citation statement)

References 35 publications

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“…Mass spectrometry imaging (MSI) is a high-throughput molecular imaging technique that enables the spatial localization of thousands of biomolecules in tissue sections . The capabilities of MSI in biochemical characterization with spatial information promote its extensive applications in biology, clinical medicine, pharmaceutical research, and environmental science. − When MSI acquires a full mass spectrum at each pixel of a tissue section, it produces thousands of ion images. Each image depicts the spatial distribution of specific ions or groups of ions.…”

Section: Introductionmentioning

confidence: 99%

DeepION: A Deep Learning-Based Low-Dimensional Representation Model of Ion Images for Mass Spectrometry Imaging

Guo,

Xie,

Miao

et al. 2024

Anal. Chem.

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Mass spectrometry imaging (MSI) is a high-throughput imaging technique capable of the qualitative and quantitative in situ detection of thousands of ions in biological samples. Ion image representation is a technique that produces a low-dimensional vector embedded with significant spectral and spatial information on an ion image, which further facilitates the distance-based similarity measurement for the identification of colocalized ions. However, given the low signal-to-noise ratios inherent in MSI data coupled with the scarcity of annotated data sets, achieving an effective ion image representation for each ion image remains a challenge. In this study, we propose DeepION, a novel deep learning-based method designed specifically for ion image representation, which is applied to the identification of colocalized ions and isotope ions. In DeepION, contrastive learning is introduced to ensure that the model can generate the ion image representation in a self-supervised manner without manual annotation. Since data augmentation is a crucial step in contrastive learning, a unique data augmentation strategy is designed by considering the characteristics of MSI data, such as the Poisson distribution of ion abundance and a random pattern of missing values, to generate plentiful ion image pairs for DeepION model training. Experimental results of rat brain tissue MSI show that DeepION outperforms other methods for both colocalized ion and isotope ion identification, demonstrating the effectiveness of ion image representation. The proposed model could serve as a crucial tool in the biomarker discovery and drug development of the MSI technique.

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Section: Introductionmentioning

confidence: 99%

DeepION: A Deep Learning-Based Low-Dimensional Representation Model of Ion Images for Mass Spectrometry Imaging

Guo,

Xie,

Miao

et al. 2024

Anal. Chem.

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Analysis of carbohydrates and glycoconjugates by matrix‐assisted laser desorption/ionization mass spectrometry: An update for 2021–2022

Harvey

2024

Mass Spectrometry Reviews

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The use of matrix‐assisted laser desorption/ionization (MALDI) mass spectrometry for the analysis of carbohydrates and glycoconjugates is a well‐established technique and this review is the 12th update of the original article published in 1999 and brings coverage of the literature to the end of 2022. As with previous review, this review also includes a few papers that describe methods appropriate to analysis by MALDI, such as sample preparation, even though the ionization method is not MALDI. The review follows the same format as previous reviews. It is divided into three sections: (1) general aspects such as theory of the MALDI process, matrices, derivatization, MALDI imaging, fragmentation, quantification and the use of computer software for structural identification. (2) Applications to various structural types such as oligo‐ and polysaccharides, glycoproteins, glycolipids, glycosides and biopharmaceuticals, and (3) other general areas such as medicine, industrial processes, natural products and glycan synthesis where MALDI is extensively used. Much of the material relating to applications is presented in tabular form. MALDI is still an ideal technique for carbohydrate analysis, particularly in its ability to produce single ions from each analyte and advancements in the technique and range of applications show little sign of diminishing.

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Mass Spectrometry-Based Omics and Imaging Technique: A Novel Tool for Molecular Toxicology and Health Impacts

Zhao

Cai

2023

Reviews Env.Contamination (formerly:Residue Reviews)

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Mass Spectrometry Imaging Revealed Sulfatides Depletion in Brain Tissues of Rats Exposed in Real Air with High Fine Particulate Matter

Cited by 6 publications

References 35 publications

DeepION: A Deep Learning-Based Low-Dimensional Representation Model of Ion Images for Mass Spectrometry Imaging

DeepION: A Deep Learning-Based Low-Dimensional Representation Model of Ion Images for Mass Spectrometry Imaging

Analysis of carbohydrates and glycoconjugates by matrix‐assisted laser desorption/ionization mass spectrometry: An update for 2021–2022

Mass Spectrometry-Based Omics and Imaging Technique: A Novel Tool for Molecular Toxicology and Health Impacts

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