Author

Tomoe Nobusada

Human TechnopoleORCID 0000-0002-4133-1565Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Signature Assays, Organisms & Methods

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Organism:human· 3 Assay:bulk RNA-seq· 2 Research Focus:gene regulatory network inference· 2 Research Focus:clustering· 1 Research Focus:database / resource· 1 Research Focus:differential expression· 1 Approach:experimental assay· 1 Assay:long-read sequencing· 1

Frequent Co-Authors

Jen-Chien ChangiD· 3 shared Kayoko YasuzawaiD· 3 shared Tsukasa Kouno· 3 shared Alice LamboleziD· 2 shared Callum ParriD· 2 shared Charles‐Henri LecellieriD· 2 shared Chi Wai YipiD· 2 shared Christophe VrolandiD· 2 shared

Activity by Year

2024-2026 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 45 mutual co-author links

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3 shared papersGenomics

Jen-Chien ChangORCID

Mutual co-authors in cluster

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3 papers

Recent·Most cited

The human RNA-DNA interactome is cell type-specific and dynamic

Alice Lambolez, Pelin Sahlén, Wenjing Kang, Xufeng Shu, Jessica Severin, Rodrigo Pracana, Ilyes Abdelhamid, Bhavya Dhaka, Christophe Vroland, Valeria Ranzani, Benedetto Polimeni, Masaru Koido, Andrea Vandelli, Maria Yu. Mintseva, Marton Rohaly Medved, , Giuseppe Testa

The paper maps RNA-DNA interactions in 16 human cell types, showing cell-type-specific and dynamic networks that correlate with gene regulation and disease traits.

bioRxiv · Aug 26, 2026 · PreprintGenomics

A genome-wide, machine learning-guided exploration of the cis-regulatory code involved in neuronal differentiation

Océane Cassan, Julien Raynal, Christophe Vroland, Kayoko Yasuzawa, Tsukasa Kouno, Jen-Chien Chang, Chung-Chau Hon, Jay W. Shin, Masaki Kato, Hazuki Takahashi, Takeya Kasukawa, Tomoe Nobusada, Vincenzo Lagani, Robert Lehmann, Kévin Yauy, , Charles‐Henri Lecellier

The paper develops a machine learning method to identify cis-regulatory element profiles and their sequence features during neuronal differentiation using single-cell ATAC-seq and RNA-seq data.

bioRxiv · May 14, 2025 · PreprintBioinformatics

Genomic codes governing enhancer RNA fate

Chi Wai Yip, Callum Parr, Hazuki Takahashi, Kayoko Yasuzawa, Matthew N. Z. Valentine, Hiromi Nishiyori-Sueki, Camilla Ugolini, Valeria Ranzani, Mitsuyoshi Murata, Masaki Kato, Wenjing Kang, Giulia Fois, Wing Hin Yip, Youtaro Shibayama, Andre Sim, , Piero Carninci

This paper introduces CFC-seq and SALA to sequence non-poly(A) RNAs, identifies 39,425 novel transcriptional units, and reveals a genomic code governing enhancer RNA fate based on promoter architecture.

bioRxiv · Oct 31, 2024 · PreprintGenomics