Author

Yanis Zirem

InsermORCID 0009-0003-1237-4448Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Biochemistry· 1 Bioengineering· 1 Bioinformatics· 1 Cancer Biology· 1

Signature Assays, Organisms & Methods

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Organism:human· 4 Research Focus:cell type annotation· 3 Research Focus:differential expression· 3 Approach:experimental assay· 2 Approach:machine learning (classical)· 2 Assay:metabolomics· 2 Assay:proteomics· 2 Assay:spatial transcriptomics· 2

Frequent Co-Authors

Isabelle FournieriD· 4 shared Michel SalzetiD· 4 shared Léa LedouxiD· 3 shared Laurine LagacheiD· 2 shared Alexandre Goosen· 1 shared Cedric J. LioniD· 1 shared Chann H. LagadeciD· 1 shared Charlotte DufouriD· 1 shared

Activity by Year

2024-2026 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 28 mutual co-author links

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4 shared papersBioinformatics

Isabelle FournierORCID

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Author profile →

4 papers

Recent·Most cited

SpacePath enables pathway and molecular-family analysis beyond annotation ambiguity in spatial metabolomics and lipidomics

Johanna Galvis, Mélanie Moreau, Sebastian Lillo, Doriane Bomont, Léa Ledoux, Yanis Zirem, Michel Salzet, Isabelle Fournier, Nicolas Desbenoît, Thomas Daubon, Macha Nikolski

SpacePath improves spatial metabolomics analysis by handling molecular ambiguity and identifying novel lipid families in spatial datasets.

bioRxiv · Oct 22, 2026 · PreprintBioinformatics

Transforming Esogastric Cancer Surgery Integrating SpiderMass Mass Spectrometry with Clinical and Microbiome Data for Margin Delineation and Prognosis

Léa Ledoux, Yanis Zirem, Alexandre Goosen, Florence Renaud, Charlotte Dufour, Julie Viezant, Cedric J. Lion, Guillaume Piessen, Michel Salzet, Isabelle Fournier

The paper integrates SpiderMass mass spectrometry with clinical and microbiome data to improve intraoperative margin delineation and prognosis in esophageal-gastric cancers.

bioRxiv · Oct 13, 2025 · PreprintCancer Biology

Development of Molecular Digital Twins Based on Ambient Ionization Mass Spectrometry Imaging for Real-Time Application in Oncological Surgery

Yanis Zirem, Léa Ledoux, Nina Ogrinc, Laurine Lagache, Roland P. Bourette, Chann H. Lagadec, Paul Chaillou, Michel Salzet, Isabelle Fournier

The paper develops a machine-learning pipeline using mass spectrometry imaging to create molecular digital twins for real-time oncological surgery, enabling precise tumor margin delineation and bacterial strain prediction.

bioRxiv · Dec 8, 2024 · PreprintBioengineering

Heterogeneity Assessment and Protein Pathway Prediction via Spatial Lipidomic and Proteomic Correlation: Advancing Dry Proteomics concept for Human Glioblastoma Prognosis

Laurine Lagache, Yanis Zirem, Émilie Le Rhun, Isabelle Fournier, Michel Salzet

The paper predicts proteins and pathways from lipid analyses using MALDI MSI and dry proteomics in glioblastoma, showing lipid-protein associations linked to patient prognosis.

Molecular & Cellular Proteomics · Dec 5, 2024Peer-reviewedBiochemistry