Author

Yixing Dong

Centre Hospitalier Universitaire VaudoisORCID 0009-0003-5115-5686Unclaimed 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:benchmarking· 3 Approach:statistical model· 3 Research Focus:cell type annotation· 2 Research Focus:spatial domain detection· 2 Assay:spatial transcriptomics· 2 Assay:bulk RNA-seq· 1 Research Focus:database / resource· 1 Approach:deep learning· 1

Frequent Co-Authors

Raphaël GottardoiD· 3 shared Daria BusztaiD· 2 shared Krisztián HomicskóiD· 2 shared Marina Alexandre Gaveta· 2 shared Senbai KangiD· 2 shared Solange PetersiD· 2 shared Alexandru MahmoudiD· 1 shared Almudena Espín-PéreziD· 1 shared

Activity by Year

2024-2026 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 31 mutual co-author links

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3 shared papersBioinformatics

Raphaël GottardoORCID

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3 papers

Recent·Most cited

Cancer BiologyNature MethodsPeer-reviewedApr 30, 2026

From Transcripts to Cells: Dissecting Sensitivity, Signal Contamination, and Specificity in Xenium Spatial Transcriptomics

Mariia Bilous, Daria Buszta, Jonathan Bac…·Raphaël Gottardo

The paper evaluates Xenium spatial transcriptomics performance, identifies technical limitations, and introduces SPLIT to improve signal purity and cell-type resolution.

15 citationstop 1%

mousespatial transcriptomics

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BioinformaticsbioRxivPreprintNov 20, 2025

Orchestrating Spatial Transcriptomics Analysis with Bioconductor

Helena Lucia Crowell, Yixing Dong, Ilaria Billato…·Lukas M. Weber

The paper provides an open-source online book for analyzing spatial transcriptomics data using Bioconductor in R, with reproducible code and datasets.

4 citations

spatial transcriptomicsstatistical model

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BioinformaticsbioRxivPreprintNov 1, 2024

Transcriptome Analysis of Archived Tumor Tissues by Visium, GeoMx DSP, and Chromium Methods Reveals Inter- and Intra-Patient Heterogeneity

Yixing Dong, Chiara Saglietti, Quentin Bayard…·Elo Madissoon

The paper compares three transcriptomic methods on FFPE tumor samples to assess their ability to detect inter- and intra-patient heterogeneity.

4 citations

humanbulk RNA-seq

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