Author

Romain Blanc‐Mathieu

Centre National de la Recherche ScientifiqueORCID 0000-0002-9485-6330Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Plant Biology· 2 Bioinformatics· 1

Signature Assays, Organisms & Methods

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Organism:Arabidopsis· 2 Research Focus:gene regulatory network inference· 2 Assay:bulk RNA-seq· 1 Assay:ChIP-seq· 1 Research Focus:database / resource· 1 Approach:deep learning· 1 Research Focus:differential expression· 1 Approach:machine learning (classical)· 1

Frequent Co-Authors

François ParcyiD· 2 shared Jérémy LucasiD· 2 shared Alice JegouiD· 1 shared Antoine FrénoyiD· 1 shared Gabrielle TichtinskyiD· 1 shared Hiroyuki OgataiD· 1 shared Hisashi EndoiD· 1 shared Koichi Ohkubo· 1 shared

Activity by Year

2019-2026 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 18 mutual co-author links

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2 shared papersPlant Biology

François ParcyORCID

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3 papers

Recent·Most cited

A comprehensive Arabidopsis transcription factor binding atlas reveals pervasive positional and syntactic organization of their DNA binding

Alice Jegou, Jérémy Lucas, Marianne Dreuillet, François Parcy, Romain Blanc‐Mathieu

This study creates a comprehensive Arabidopsis TF binding atlas, revealing family-specific binding patterns and the importance of DNA sequence syntax in TF-DNA interactions.

bioRxiv · Sep 24, 2026 · PreprintPlant Biology

Beyond binding motif: genomic context predicts transcription factor dependent regulation in Arabidopsis

Laura Turchi, Jérémy Lucas, Gabrielle Tichtinsky, Nicolas Thierry‐Mieg, Romain Blanc‐Mathieu, François Parcy, Antoine Frénoy

This study predicts effective transcriptional regulation by the Arabidopsis TF LFY by analyzing genomic context and binding site features.

bioRxiv · May 23, 2025 · PreprintPlant Biology

KofamKOALA: KEGG ortholog assignment based on profile HMM and adaptive score threshold

Takuya Aramaki, Romain Blanc‐Mathieu, Hisashi Endo, Koichi Ohkubo, Minoru I. Kanehisa, Susumu Goto, Hiroyuki Ogata

KofamKOALA assigns KEGG Orthologs to protein sequences using profile HMMs and adaptive thresholds, achieving comparable accuracy to existing tools while being faster.

Bioinformatics · Nov 18, 2019Peer-reviewedBioinformatics