Medical AI center, Niigata University School of Medicine/Niigata University Graduate School of Medical and Dental Sciences - Medical AI Center/Bioinformatics laboratory

About us

Bioinformatics laboratory focuses on the following topics.

Functional genomics/metagenomics

Human gut microbiomes
Comparative metagenomics
Evolution of phosphorylation
Cancer genomics
Artificial intelligence (machine learning)

Database construction

HEMM: Human - Earth Microbes and Microbiomes
ODB: Operon DataBase
GlycoEpitope
jPOST: Japan ProteOme STandard repository/database.

Latest publications

Mitsui, A., Iioka, H., Ling, Y., Okuda, S., Kurose, A., Schopperle, M., Kondo, T., Sakaguchi, M., Saito, K., Kondo, E. Pathological and Biological Significance of the Specific Glycan, TRA-1-60, on Aggressive Gastric Adenocarcinoma. Lab Invest. 104(7):102073(2024). PubMed Laboratory Investigation .
Paper
Ichikawa, H., Usui, K., Aizawa, M., Shimada, Y., Muneoka, Y., Kano, Y., Sugai, M., Moro, K., Hirose, Y., Miura, K., Sakata, J., Yabusaki, H., Nakagawa, S., Kawasaki, T., Umezu, H., Okuda, S., Wakai, T. Clinical application of targeted tumour sequencing tests for detecting ERBB2 amplification and optimizing anti-HER2 therapy in gastric cancer. BMC Cancer 24(1):719(2024). . PubMed BMC Cancer
Paper
Takeishi, A., Shaban, A. K., Kakihana, T., Takihara, H., Okuda, S., Osada, H., Suameitria Dewi, D. N. S., Ozeki, Y., Yoshida, Y., Nishiyama, A., Tateishi, Y., Aizu, Y., Chuma, Y., Onishi, K., Hayashi, D., Yamamoto, S., Mukai,T., Ato, M., Thai, D. H., Nhi, H. T. T., Shirai, T., Shibata, S., Obata, F., Fujii, J., Yamayoshi, S., Kiso, M., Matsumoto, S. Genetic engineering employing MPB70 and its promoter enables efficie …
Paper
Ozeki, H., Shimada, Y., Nakano, M., Kondo, S., Ohashi, R., Miwa, Y., Yamai, D., Matsumoto, A., Abe, K., Tajima, Y., Ichikawa, H., Sakata, J., Takii, Y., Sugai, M., Nagai, T., Ling, Y., Okuda, S., Wakai, T. Mucin phenotype and genetic alterations in non-V600E BRAF-mutated colorectal cancer. Hum. Pathol. 145:71-79(2024). PubMed Human Pathology
Paper
HUPO-PSI Kyoto Symposium 2024,　“Current status of the jPOST and JPDM projects and future approaches to multi-omics data integration.”, Fujita Commemorative Lecture Hall Kyoto University (2024/3/21).
Lecture
Ishiguro, H., Ushiki, T., Honda, A., Yoshimatsu, Y., Ohashi, R., Okuda, S., Kawasaki, A., Cho, K., Tamura, S., Suwabe, T., Katagiri, T., Ling, Y., Iijima, A., Mikami, T., Kitgawa, H,, Uemura, A., Sango, K., Masuko, M., Igarashi, M., Sone, H. Reduced chondroitin sulfate content prevents diabetic neuropathy through transforming growth factor-β signaling suppression. iScience 27(4):109528. PubMed …
Paper

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