Author

Alexis Groppi

1, 3 Univ. Bordeaux, Centre de Bioinformatique de Bordeaux CBiB - US Ubx 006, F-33076 Bordeaux, France; Univ. Bordeaux, CNRS, IBGC, UMR 5095, F-33000 Bordeaux, FranceORCID 0000-0002-3341-8281Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Bioinformatics· 2 Cancer Biology· 1

Signature Assays, Organisms & Methods

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Research Focus:differential expression· 2 Organism:human· 2 Assay:spatial transcriptomics· 2 Approach:statistical model· 2 Research Focus:benchmarking· 1 Assay:bulk RNA-seq· 1 Research Focus:cell type annotation· 1 Research Focus:clustering· 1

Frequent Co-Authors

Daniel Garcia-RuanoiD· 2 shared Hamid-Reza RezvaniiD· 2 shared Macha NikolskiiD· 2 shared Sergio Oterino-SogoiD· 2 shared Alexis MergeziD· 1 shared Amandine CornilleiD· 1 shared Benjamin LinardiD· 1 shared Fanny BeltzungiD· 1 shared

Activity by Year

2025-2026 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 21 mutual co-author links

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2 shared papersBioinformatics

Daniel Garcia-RuanoORCID

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Author profile →

3 papers

Recent·Most cited

SpaceBlocks: an expert-supervised workflow for cohort-level spatial transcriptomics analysis

Sergio Oterino-Sogo, Nazim Mechkouri, Daniel Garcia-Ruano, Alexis Groppi, Hamid-Reza Rezvani, Macha Nikolski

SpaceBlocks is a workflow for reproducible, expert-supervised spatial transcriptomics analysis across platforms, identifying new cell types and differentially expressed genes in multiple datasets.

bioRxiv · Nov 2, 2026 · PreprintBioinformatics

Spatial and Bulk Transcriptomic Profiling Defines the Molecular Evolution of Cutaneous Squamous Cell Carcinoma and Reveals Stage-Specific Biomarkers of Clinical Relevance

Fatima Naji, Sergio Oterino-Sogo, Fanny Beltzung, Daniel García‐Ruano, Walid Mahfouf, Jean‐Philippe Guégan, Mylène Bohec, Alexis Groppi, Marie Beylot-Barry, L. Dousset, Macha Nikolski, Hamid Reza Rezvani

This study uses spatial and bulk transcriptomics to map cSCC progression, identifies stage-specific gene programs, and finds prognostic biomarkers relevant across cancers.

bioRxiv · May 5, 2026 · PreprintCancer Biology

Building pangenomes for domesticated and wild tree species: genomic complexity and strategies

Ismael Blanchard, Quynh Trang Bui, Alexis Mergez, Sukanya Denni, Amandine Cornille, Alexis Groppi, Johann Confais, Ludovic Duvaux, Véronique Decroocq‐Ferrant, Benjamin Linard

This paper constructs cross-taxon pangenomes for tree species, identifies structural variants, and evaluates their functional relevance using the Armeniaca taxonomic section.

bioRxiv · Jul 22, 2025 · PreprintBioinformatics