Search Results - Shujiro Okuda

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  1. 1

    Current progress and critical challenges to overcome in the bioinformatics of mass spectrometry-based metaproteomics by Nobuaki Miura, Shujiro Okuda

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  2. 2

    Phylogenetic tree-based amino acid sequence generation for proteomics data analysis of unknown species by Nobuaki Miura, Tsuyoshi Tabata, Yasushi Ishihama, Shujiro Okuda

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  3. 3

    Insights into predicting small molecule retention times in liquid chromatography using deep learning by Yuting Liu, Akiyasu C. Yoshizawa, Yiwei Ling, Shujiro Okuda

    Published in Journal of Cheminformatics (2024-10-01)
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  4. 4

    Evaluation of potential of targeted sequencing through mutational signature simulation. by Keisuke Kodama, Yiwei Ling, Hiroshi Ichikawa, Toshifumi Wakai, Shujiro Okuda

    Published in PLoS ONE (2025-01-01)
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  5. 5

    Sperm-specific histone H1 in highly condensed sperm nucleus of Sargassum horneri by Yu Takeuchi, Shinya Sato, Chikako Nagasato, Taizo Motomura, Shujiro Okuda, Masahiro Kasahara, Fumio Takahashi, Shinya Yoshikawa

    Published in Scientific Reports (2024-02-01)
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  6. 6

    BCL11B expression in hepatocellular carcinoma relates to chemosensitivity and clinical prognosis by Hiroyuki Abe, Kenya Kamimura, Shujiro Okuda, Yu Watanabe, Jun Inoue, Yutaka Aoyagi, Toshifumi Wakai, Ryo Kominami, Shuji Terai

    Published in Cancer Medicine (2023-07-01)
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  7. 7

    Inhibition of dipeptidyl peptidase-4 ameliorates cardiac ischemia and systolic dysfunction by up-regulating the FGF-2/EGR-1 pathway. by Masayoshi Suda, Ippei Shimizu, Yohko Yoshida, Yuka Hayashi, Ryutaro Ikegami, Goro Katsuumi, Takayuki Wakasugi, Yutaka Yoshida, Shujiro Okuda, Tomoyoshi Soga, Tohru Minamino

    Published in PLoS ONE (2017-01-01)
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  8. 8

    Mycobacterial DNA-binding protein 1 is critical for BCG survival in stressful environments and simultaneously regulates gene expression by Amina K. Shaban, Gebremichal Gebretsadik, Mariko Hakamata, Hayato Takihara, Erina Inouchi, Akihito Nishiyama, Yuriko Ozeki, Yoshitaka Tateishi, Yukiko Nishiuchi, Takehiro Yamaguchi, Naoya Ohara, Shujiro Okuda, Sohkichi Matsumoto

    Published in Scientific Reports (2023-08-01)
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  9. 9

    Patients with periodontitis exhibit persistent dysbiosis of the gut microbiota and distinct serum metabolome by Eiji Miyauchi, Kyoko Yamazaki, Yuuri Tsuboi, Takako Nakajima, Shigeru Ono, Kentaro Mizuno, Naoki Takahashi, Kentaro Imamura, Hidetoshi Morita, Nobuaki Miura, Shujiro Okuda, Jun Kikuchi, Nobuo Sasaki, Hiroshi Ohno, Kazuhisa Yamazaki

    Published in Journal of Oral Microbiology (2025-12-01)
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  10. 10

    Putrescine Production by <i>Latilactobacillus curvatus</i> KP 3-4 Isolated from Fermented Foods by Rika Hirano, Aiko Kume, Chisato Nishiyama, Ryosuke Honda, Hideto Shirasawa, Yiwei Ling, Yuta Sugiyama, Misaki Nara, Hiromi Shimokawa, Hiroki Kawada, Takashi Koyanagi, Hisashi Ashida, Shujiro Okuda, Mitsuharu Matsumoto, Hiroki Takagi, Shin Kurihara

    Published in Microorganisms (2022-03-01)
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  11. 11

    Differential analysis of microbiomes in mucus and tissues obtained from colorectal cancer patients by Yosuke Tajima, Shujiro Okuda, Tsunekazu Hanai, Junichiro Hiro, Koji Masumori, Yoshikazu Koide, Tadahiro Kamiya, Yeongcheol Cheong, Gaku Inaguma, Yoshifumi Shimada, Toshifumi Wakai, Hayato Takihara, Shingo Akimoto, Hiroshi Matsuoka, Ichiro Uyama, Koichi Suda

    Published in Scientific Reports (2022-10-01)
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  12. 12

    Resequencing and Association Analysis of CLN8 with Autism Spectrum Disorder in a Japanese Population. by Emiko Inoue, Yuichiro Watanabe, Jingrui Xing, Itaru Kushima, Jun Egawa, Shujiro Okuda, Satoshi Hoya, Takashi Okada, Yota Uno, Kanako Ishizuka, Atsunori Sugimoto, Hirofumi Igeta, Ayako Nunokawa, Toshiro Sugiyama, Norio Ozaki, Toshiyuki Someya

    Published in PLoS ONE (2015-01-01)
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  13. 13

    Clinical application of targeted tumour sequencing tests for detecting ERBB2 amplification and optimizing anti-HER2 therapy in gastric cancer by Hiroshi Ichikawa, Kenji Usui, Masaki Aizawa, Yoshifumi Shimada, Yusuke Muneoka, Yosuke Kano, Mika Sugai, Kazuki Moro, Yuki Hirose, Kohei Miura, Jun Sakata, Hiroshi Yabusaki, Satoru Nakagawa, Takashi Kawasaki, Hajime Umezu, Shujiro Okuda, Toshifumi Wakai

    Published in BMC Cancer (2024-06-01)
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  14. 14

    Frequent Germline and Somatic Single Nucleotide Variants in the Promoter Region of the Ribosomal RNA Gene in Japanese Lung Adenocarcinoma Patients by Riuko Ohashi, Hajime Umezu, Ayako Sato, Tatsuya Abé, Shuhei Kondo, Kenji Daigo, Seijiro Sato, Norikazu Hara, Akinori Miyashita, Takeshi Ikeuchi, Teiichi Motoyama, Masashi Kishi, Tadahiro Nagaoka, Keiko Horiuchi, Atsushi Shiga, Shujiro Okuda, Tomoki Sekiya, Aya Ohtsubo, Kosuke Ichikawa, Hiroshi Kagamu, Toshiaki Kikuchi, Satoshi Watanabe, Jun-Ichi Tanuma, Peter Schraml, Takao Hamakubo, Masanori Tsuchida, Yoichi Ajioka

    Published in Cells (2020-11-01)
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  15. 15

    Towards a standardized bioinformatics infrastructure for N- and O-glycomics by Miguel A. Rojas-Macias, Julien Mariethoz, Peter Andersson, Chunsheng Jin, Vignesh Venkatakrishnan, Nobuyuki P. Aoki, Daisuke Shinmachi, Christopher Ashwood, Katarina Madunic, Tao Zhang, Rebecca L. Miller, Oliver Horlacher, Weston B. Struwe, Yu Watanabe, Shujiro Okuda, Fredrik Levander, Daniel Kolarich, Pauline M. Rudd, Manfred Wuhrer, Carsten Kettner, Nicolle H. Packer, Kiyoko F. Aoki-Kinoshita, Frédérique Lisacek, Niclas G. Karlsson

    Published in Nature Communications (2019-07-01)
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  16. 16

    Brown adipose tissue dysfunction promotes heart failure via a trimethylamine N-oxide-dependent mechanism by Yohko Yoshida, Ippei Shimizu, Atsuhiro Shimada, Keita Nakahara, Sachiko Yanagisawa, Minoru Kubo, Shinji Fukuda, Chiharu Ishii, Hiromitsu Yamamoto, Takamasa Ishikawa, Kuniyuki Kano, Junken Aoki, Goro Katsuumi, Masayoshi Suda, Kazuyuki Ozaki, Yutaka Yoshida, Shujiro Okuda, Shigeo Ohta, Shiki Okamoto, Yasuhiko Minokoshi, Kanako Oda, Toshikuni Sasaoka, Manabu Abe, Kenji Sakimura, Yoshiaki Kubota, Norihiko Yoshimura, Shingo Kajimura, Maria Zuriaga, Kenneth Walsh, Tomoyoshi Soga, Tohru Minamino

    Published in Scientific Reports (2022-09-01)
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