Author

Masahiko Kumagai

National Agriculture and Food Research OrganizationORCID 0000-0001-8971-4592Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Genomics· 2 Bioinformatics· 1 Genetics· 1

Signature Assays, Organisms & Methods

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Research Focus:database / resource· 2 Approach:experimental assay· 2 Research Focus:gene regulatory network inference· 2 Approach:statistical model· 2 Assay:whole-genome sequencing· 2 Approach:benchmark study· 1 Assay:bulk RNA-seq· 1 Assay:ChIP-seq· 1

Frequent Co-Authors

Hiroaki SakaiiD· 2 shared Akiko Baba-Kasai· 1 shared Akino ShiromaiD· 1 shared Akito KagaiD· 1 shared Alisa Kongjaimun· 1 shared Atsuko Shimada· 1 shared Bradley Robert CairnsiD· 1 shared Candice L. Wike· 1 shared

Activity by Year

2019-2026 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 21 mutual co-author links

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2 shared papersBioinformatics

Hiroaki SakaiORCID

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4 papers

Recent·Most cited

BioinformaticsRicePeer-reviewedMay 27, 2026

Rice Annotation Project Database (RAP-DB): literature-curated gene annotation and integrated omics resources for rice functional genomics and molecular breeding

Yoshihiro Kawahara, Tomoko Hirozane-Kishikawa, Ryo Hirata…·Takeshi Itoh

RAP-DB curates gene annotations and integrates omics data for rice, supporting functional genomics and molecular breeding through expert curation and community resources.

3 citationstop 1%

plant (other)whole-genome sequencing

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GenomicsbioRxivPreprintAug 9, 2024

High-coverage genome sequencing of Yayoi and Jomon individuals shed light on prehistoric human population history in East Eurasian

Koji Ishiya, Fuzuki Mizuno, Jun Gojobori…·Shintaroh Ueda

This study presents high-coverage genomes from Yayoi and Jomon individuals, revealing genetic differences and dietary adaptations linked to agricultural practices in ancient Japan.

4 citations

humanwhole-genome sequencing

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GenomicsGenome ResearchPeer-reviewedJun 1, 2021

CTCF looping is established during gastrulation in medaka embryos

Ryohei Nakamura, Yuichi Motai, Masahiko Kumagai…·Hiroyuki Takeda

The paper examines genome architecture changes during medaka gastrulation, finding that CTCF loops form while CTCF binding sites remain fixed, and transcription precedes mature domain formation.

57 citations

zebrafishChIP-seq

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GeneticsbioRxivPreprintSep 28, 2019

Genetic factor for twisting legume pods identified by fine-mapping of shattering-related traits in azuki bean and yard-long bean

Yu Takahashi, Alisa Kongjaimun, Chiaki Muto…·Ken Naito

The paper identifies MYB26 as a genetic factor for twisting legume pods through fine-mapping of shattering-related traits in azuki and yard-long beans.

11 citations

benchmark studyfine-mapping

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