Author

Vladyslav Honcharuk

Kyoto UniversityORCID 0000-0002-7464-500XUnclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Signature Assays, Organisms & Methods

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Assay:spatial transcriptomics· 3 Approach:statistical model· 3 Research Focus:database / resource· 2 Organism:human· 2 Research Focus:cell type annotation· 1 Organism:mouse· 1 Assay:scRNA-seq· 1 Research Focus:spatial domain detection· 1

Frequent Co-Authors

Alexis VandenboniD· 3 shared Afeefa ZainabiD· 2 shared Diego DíeziD· 2 shared Keiko Takemoto· 2 shared Shinpei KawaokaiD· 2 shared Hongyi Zhao· 1 shared Marvin C. MasalungaiD· 1 shared Yoshiya HorimotoiD· 1 shared

Activity by Year

2025-2026 · peak 2/yr

Co-Author Collaboration Network

8 top collaborators · 24 mutual co-author links

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3 shared papersBioinformatics

Alexis VandenbonORCID

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Author profile →

3 papers

Recent·Most cited

DeepSpaceDB 2.0: an interactive spatial transcriptomics database for large-scale Xenium data exploration

Vladyslav Honcharuk, Keiko Takemoto, Marvin C. Masalunga, Hongyi Zhao, Diego Díez, Shinpei Kawaoka, Alexis Vandenbon

DeepSpaceDB 2.0 expands its database to include 1,539 public Xenium datasets, offering improved tools for interactive exploration and analysis of spatial transcriptomics data.

bioRxiv · Sep 18, 2026 · PreprintBioinformatics

oCELLoc: Automated Cell Type Assignment in Transcriptomics Data Using Reference Filtering

Afeefa Zainab, Vladyslav Honcharuk, Alexis Vandenbon

oCELLoc improves cell-type prediction in scRNA-seq and spatial transcriptomics data by filtering relevant reference cell types, leading to more accurate downstream analyses.

bioRxiv · Dec 15, 2025 · PreprintBioinformatics

DeepSpaceDB: a spatial transcriptomics atlas for interactive in-depth analysis of tissues and tissue microenvironments

Vladyslav Honcharuk, Afeefa Zainab, Yoshiya Horimoto, Keiko Takemoto, Diego Díez, Shinpei Kawaoka, Alexis Vandenbon

DeepSpaceDB provides an interactive spatial transcriptomics database with advanced analysis tools for comparing gene expression across tissue regions and samples.

Nucleic Acids Research · Oct 10, 2025Peer-reviewedBioinformatics