Author

Naoki Takeda

Institute of Resource Development and Analysis, Kumamoto UniversityORCID 0009-0008-2362-7179Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Bioinformatics· 1 Developmental Biology· 1 Immunology· 1

Signature Assays, Organisms & Methods

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Organism:mouse· 3 Assay:bulk RNA-seq· 2 Research Focus:cell type annotation· 2 Research Focus:differential expression· 2 Approach:experimental assay· 2 Research Focus:gene regulatory network inference· 2 Research Focus:cell-cell communication· 1 Approach:contrastive learning· 1

Frequent Co-Authors

Kimi ArakiiD· 3 shared Aiko SadaiD· 1 shared Gen Nakayama· 1 shared Guangqi GaoiD· 1 shared Haruka Narita· 1 shared Hidenori NishiharaiD· 1 shared Hung Manh PhungiD· 1 shared Ikuto NishikawaiD· 1 shared

Activity by Year

2023-2026 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 21 mutual co-author links

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3 shared papersDevelopmental Biology

Kimi ArakiORCID

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3 papers

Recent·Most cited

Developmental BiologybioRxivPreprintMay 28, 2026

The Il1r2-CreERT2 knock-in mouse enables inducible labeling of slow-cycling epidermal basal cells and genetic ablation of the IL-1 decoy receptor

Hung Manh Phung, Nguyen Thi Kim Nguyen, Ikuto Nishikawa…·Aiko Sada

This study identifies Il1r2 as a marker for slow-cycling epidermal basal cells and develops a genetic tool for lineage tracing and IL-1 signaling modulation.

DOI 10.64898/2026.05.25.727717

mousebulk RNA-seq

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ImmunologyNature CommunicationsPeer-reviewedJul 1, 2025

Machine Learning-Assisted Decoding of Temporal Transcriptional Dynamics via Fluorescent Timer

Nobuko Irie, Naoki Takeda, Yorifumi Satou…·Masahiro Ono

This study uses CRISPR, Tocky, and machine learning to analyze Foxp3 transcription dynamics in mice, revealing CNS2-dependent regulation and age-related expression patterns.

2 citations

mouseflow cytometry

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BioinformaticsbioRxivPreprintJun 26, 2023

Morc1 re-establishes heterochromatin on activated transposons and shapes the host transcriptome in gonocytes

Yuta Uneme, Ryu Maeda, Gen Nakayama…·Soichiro Yamanaka

The paper shows Morc1 re-silences activated transposons in gonocytes by establishing heterochromatin, preventing their disruptive effects on the transcriptome.

DOI 10.1101/2023.06.26.546627

mouseDNA methylation

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