Metagenomic and metabolomic analyses reveal distinct stage-specific phenotypes of the gut microbiota in colorectal cancer
Yachida, Shinichi, Mizutani, Sayaka, Shiroma, Hirotsugu, Shiba, Satoshi, Nakajima, Takeshi, Sakamoto, Taku, Watanabe, Hikaru, Masuda, Keigo, Nishimoto, Yuichiro, Kubo, Masaru, Hosoda, Fumie, Rokutan, Hirofumi, Matsumoto, Minori, Takamaru, Hiroyuki, Yamada, Masayoshi, Matsuda, Takahisa, Iwasaki, Motoki, Yamaji, Taiki, Yachida, Tatsuo, Soga, Tomoyoshi, Kurokawa, Ken, Toyoda, Atsushi, Ogura, Yoshitoshi, Hayashi, Tetsuya, Hatakeyama, Masanori, Nakagama, Hitoshi, Saito, Yutaka, Fukuda, Shinji, Shibata, Tatsuhiro, Yamada, Takuji
Published in Nature medicine (01.06.2019)
Published in Nature medicine (01.06.2019)
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Journal Article
QNetDiff: a quantitative measurement of network rewiring
Nose, Shota, Shiroma, Hirotsugu, Yamada, Takuji, Uno, Yushi
Published in BMC bioinformatics (18.03.2024)
Published in BMC bioinformatics (18.03.2024)
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Journal Article
Meta-analysis of fecal metagenomes reveals global microbial signatures that are specific for colorectal cancer
Wirbel, Jakob, Pyl, Paul Theodor, Kartal, Ece, Zych, Konrad, Kashani, Alireza, Milanese, Alessio, Fleck, Jonas S., Voigt, Anita Y., Palleja, Albert, Ponnudurai, Ruby, Sunagawa, Shinichi, Coelho, Luis Pedro, Schrotz-King, Petra, Vogtmann, Emily, Habermann, Nina, Niméus, Emma, Thomas, Andrew M., Manghi, Paolo, Gandini, Sara, Serrano, Davide, Mizutani, Sayaka, Shiroma, Hirotsugu, Shiba, Satoshi, Shibata, Tatsuhiro, Yachida, Shinichi, Yamada, Takuji, Waldron, Levi, Naccarati, Alessio, Segata, Nicola, Sinha, Rashmi, Ulrich, Cornelia M., Brenner, Hermann, Arumugam, Manimozhiyan, Bork, Peer, Zeller, Georg
Published in Nature medicine (01.04.2019)
Published in Nature medicine (01.04.2019)
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Journal Article
Metagenomic analysis of colorectal cancer datasets identifies cross-cohort microbial diagnostic signatures and a link with choline degradation
Thomas, Andrew Maltez, Manghi, Paolo, Asnicar, Francesco, Pasolli, Edoardo, Armanini, Federica, Zolfo, Moreno, Beghini, Francesco, Manara, Serena, Karcher, Nicolai, Pozzi, Chiara, Gandini, Sara, Serrano, Davide, Tarallo, Sonia, Francavilla, Antonio, Gallo, Gaetano, Trompetto, Mario, Ferrero, Giulio, Mizutani, Sayaka, Shiroma, Hirotsugu, Shiba, Satoshi, Shibata, Tatsuhiro, Yachida, Shinichi, Yamada, Takuji, Wirbel, Jakob, Schrotz-King, Petra, Ulrich, Cornelia M., Brenner, Hermann, Arumugam, Manimozhiyan, Bork, Peer, Zeller, Georg, Cordero, Francesca, Dias-Neto, Emmanuel, Setubal, João Carlos, Tett, Adrian, Pardini, Barbara, Rescigno, Maria, Waldron, Levi, Naccarati, Alessio, Segata, Nicola
Published in Nature medicine (01.04.2019)
Published in Nature medicine (01.04.2019)
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Journal Article
Leveraging explainable AI for gut microbiome-based colorectal cancer classification
Rynazal, Ryza, Fujisawa, Kota, Shiroma, Hirotsugu, Salim, Felix, Mizutani, Sayaka, Shiba, Satoshi, Yachida, Shinichi, Yamada, Takuji
Published in Genome Biology (09.02.2023)
Published in Genome Biology (09.02.2023)
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Journal Article
Identification of Faecalibacterium prausnitzii strains for gut microbiome-based intervention in Alzheimer’s-type dementia
Ueda, Atsushi, Shinkai, Shoji, Shiroma, Hirotsugu, Taniguchi, Yu, Tsuchida, Sayaka, Kariya, Takahiro, Kawahara, Tomohiro, Kobayashi, Yodai, Kohda, Noriyuki, Ushida, Kazunari, Kitamura, Akihiko, Yamada, Takuji
Published in Cell reports. Medicine (21.09.2021)
Published in Cell reports. Medicine (21.09.2021)
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Journal Article
Gut microbial composition of elderly women born in the Japanese longevity village Ogimi
MORITA, Hiroto, ICHISHIMA, Mutsuki, TADA, Ipputa, SHIROMA, Hirotsugu, MIYAGI, Makoto, NAKAMURA, Teppei, TANAKA, Hiroshi, IKEMATSU, Shinya
Published in Bioscience of Microbiota, Food and Health (01.01.2021)
Published in Bioscience of Microbiota, Food and Health (01.01.2021)
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Journal Article
Surgical Treatment for Colorectal Cancer Partially Restores Gut Microbiome and Metabolome Traits
Shiroma, Hirotsugu, Shiba, Satoshi, Erawijantari, Pande Putu, Takamaru, Hiroyuki, Yamada, Masayoshi, Sakamoto, Taku, Kanemitsu, Yukihide, Mizutani, Sayaka, Soga, Tomoyoshi, Saito, Yutaka, Shibata, Tatsuhiro, Fukuda, Shinji, Yachida, Shinichi, Yamada, Takuji
Published in mSystems (26.04.2022)
Published in mSystems (26.04.2022)
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Journal Article
Influence of gastrectomy for gastric cancer treatment on faecal microbiome and metabolome profiles
Erawijantari, Pande Putu, Mizutani, Sayaka, Shiroma, Hirotsugu, Shiba, Satoshi, Nakajima, Takeshi, Sakamoto, Taku, Saito, Yutaka, Fukuda, Shinji, Yachida, Shinichi, Yamada, Takuji
Published in Gut (01.08.2020)
Published in Gut (01.08.2020)
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Journal Article
Enteropathway: the metabolic pathway database for the human gut microbiota
Shiroma, Hirotsugu, Darzi, Youssef, Terajima, Etsuko, Nakagawa, Zenichi, Tsuchikura, Hirotaka, Tsukuda, Naoki, Moriya, Yuki, Okuda, Shujiro, Goto, Susumu, Yamada, Takuji
Published in Briefings in bioinformatics (25.07.2024)
Published in Briefings in bioinformatics (25.07.2024)
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Journal Article
Author Correction: Metagenomic analysis of colorectal cancer datasets identifies cross-cohort microbial diagnostic signatures and a link with choline degradation
Thomas, Andrew Maltez, Manghi, Paolo, Asnicar, Francesco, Pasolli, Edoardo, Armanini, Federica, Zolfo, Moreno, Beghini, Francesco, Manara, Serena, Karcher, Nicolai, Pozzi, Chiara, Gandini, Sara, Serrano, Davide, Tarallo, Sonia, Francavilla, Antonio, Gallo, Gaetano, Trompetto, Mario, Ferrero, Giulio, Mizutani, Sayaka, Shiroma, Hirotsugu, Shiba, Satoshi, Shibata, Tatsuhiro, Yachida, Shinichi, Yamada, Takuji, Wirbel, Jakob, Schrotz-King, Petra, Ulrich, Cornelia M., Brenner, Hermann, Arumugam, Manimozhiyan, Bork, Peer, Zeller, Georg, Cordero, Francesca, Dias-Neto, Emmanuel, Setubal, João Carlos, Tett, Adrian, Pardini, Barbara, Rescigno, Maria, Waldron, Levi, Naccarati, Alessio, Segata, Nicola
Published in Nature medicine (01.12.2019)
Published in Nature medicine (01.12.2019)
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Journal Article
Gut microbial composition of elderly women born in the Japanese longevity village Ogimi
MORITA, Hiroto, ICHISHIMA, Mutsuki, TADA, Ipputa, SHIROMA, Hirotsugu, MIYAGI, Makoto, NAKAMURA, Teppei, TANAKA, Hiroshi, IKEMATSU, Shinya
Published in Bioscience of Microbiota, Food and Health (2020)
Published in Bioscience of Microbiota, Food and Health (2020)
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Journal Article