Shinya Oki

特定准教授 / Program-Specific Associate Professor

Kyoto University

Japan

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Shinya Oki is a Program-Specific Associate Professor at Kyoto University in Japan. His research focuses on mitochondrial cardiomyopathy, disease mechanisms associated with pollutants, and the utilization of large language models for enhancing biological data. Recent contributions include studies on microcephaly, atrial fibrillation, and drug responses, utilizing advanced methodologies such as single-cell transcriptomics and ChIP-Seq data analysis.

Articles (17)

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2025

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2022

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2022

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2022

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2022

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2022

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2022

Collaborators (20)

Mizuki Honda

Assistant professor

Hiroshima University

JAPAN

Shinya Oki

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Articles (17)

Extraction of biological terms using large language models enhances the usability of metadata in the BioSample database

Atf3 controls transitioning in female mitochondrial cardiomyopathy as identified by spatial and single-cell transcriptomics.

HKDC1, a target of TFEB, is essential to maintain both mitochondrial and lysosomal homeostasis, preventing cellular senescence

Biallelic null variants in <i>PNPLA8</i> cause microcephaly by reducing the number of basal radial glia

ChIP-Atlas 3.0: a data-mining suite to explore chromosome architecture together with large-scale regulome data

Structural and molecular properties of mumps virus inclusion bodies

Cross-ancestry genome-wide analysis of atrial fibrillation unveils disease biology and enables cardioembolic risk prediction

Elucidating disease-associated mechanisms triggered by pollutants via the epigenetic landscape using large-scale ChIP-Seq data

Detection of REST expression in the testis using epitope‐tag knock‐in mice generated by genome editing

Mitochondrial stress induces AREG expression and epigenomic remodeling through c-JUN and YAP-mediated enhancer activation

ChIP-Atlas 2021 update: a data-mining suite for exploring epigenomic landscapes by fully integrating ChIP-seq, ATAC-seq and Bisulfite-seq data

Age-associated decline of MondoA drives cellular senescence through impaired autophagy and mitochondrial homeostasis

Epigenetic landscape of drug responses revealed through large-scale ChIP-seq data analyses

Regulome-based characterization of drug activity across the human diseasome

A novel role of helix‐loop‐helix transcriptional factor Bhlhe40 in osteoclast activation

TRANSDIRE: data-driven direct reprogramming by a pioneer factor-guided trans-omics approach

Photo-isolation chemistry for high-resolution and deep spatial transcriptome with mouse tissue sections.

Collaborators (20)

Mizuki Honda

Katsuya Nagaoka

Hidemasa Bono

Kouichi Ozaki

Hiroshi Akazawa

Hidesato Ogawa

Tatsuhiko Tsunoda

Tazro Ohta

Shuhei Nakamura

Masanori Fujimoto

Kazuo Miyazawa

Mitsuyoshi Nakao

david thorburn

Issei Shimada

Yasuyuki Ohkawa

Takako Kikkawa

Zhaonan Zou

Takayoshi Inoue

Toshiaki Katayama

Tatsuya Kaminishi

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