DeepKINET: a deep generative model for estimating single-cell RNA splicing and degradation rates von Mizukoshi, Chikara, Kojima, Yasuhiro, Nomura, Satoshi, Hayashi, Shuto, Abe, Ko, Shimamura, Teppei

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A temporal shift of the evolutionary principle shaping intratumor heterogeneity in colorectal cancer von Saito, Tomoko, Niida, Atsushi, Uchi, Ryutaro, Hirata, Hidenari, Komatsu, Hisateru, Sakimura, Shotaro, Hayashi, Shuto, Nambara, Sho, Kuroda, Yosuke, Ito, Shuhei, Eguchi, Hidetoshi, Masuda, Takaaki, Sugimachi, Keishi, Tobo, Taro, Nishida, Haruto, Daa, Tsutomu, Chiba, Kenichi, Shiraishi, Yuichi, Yoshizato, Tetsuichi, Kodama, Masaaki, Okimoto, Tadayoshi, Mizukami, Kazuhiro, Ogawa, Ryo, Okamoto, Kazuhisa, Shuto, Mitsutaka, Fukuda, Kensuke, Matsui, Yusuke, Shimamura, Teppei, Hasegawa, Takanori, Doki, Yuichiro, Nagayama, Satoshi, Yamada, Kazutaka, Kato, Mamoru, Shibata, Tatsuhiro, Mori, Masaki, Aburatani, Hiroyuki, Murakami, Kazunari, Suzuki, Yutaka, Ogawa, Seishi, Miyano, Satoru, Mimori, Koshi

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A Bayesian model integration for mutation calling through data partitioning von Moriyama, Takuya, Imoto, Seiya, Hayashi, Shuto, Shiraishi, Yuichi, Miyano, Satoru, Yamaguchi, Rui

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Thyroid metastasis from cervical carcinoma von Hayashi, Shuto, Kumai, Takumi, Michizuka, Tomohiko, Osaki, Takashi

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Spatial and single-cell transcriptomics decipher the cellular environment containing HLA-G+ cancer cells and SPP1+ macrophages in colorectal cancer von Ozato, Yuki, Kojima, Yasuhiro, Kobayashi, Yuta, Hisamatsu, Yuuichi, Toshima, Takeo, Yonemura, Yusuke, Masuda, Takaaki, Kagawa, Kouichi, Goto, Yasuhiro, Utou, Mitsuaki, Fukunaga, Mituko, Gamachi, Ayako, Imamura, Kiyomi, Kuze, Yuta, Zenkoh, Junko, Suzuki, Ayako, Niida, Atsushi, Hirose, Haruka, Hayashi, Shuto, Koseki, Jun, Oki, Eiji, Fukuchi, Satoshi, Murakami, Kazunari, Tobo, Taro, Nagayama, Satoshi, Uemura, Mamoru, Sakamoto, Takeharu, Oshima, Masanobu, Doki, Yuichiro, Eguchi, Hidetoshi, Mori, Masaki, Iwasaki, Takeshi, Oda, Yoshinao, Shibata, Tatsuhiro, Suzuki, Yutaka, Shimamura, Teppei, Mimori, Koshi

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Nucleic acid–triggered tumoral immunity propagates pH‐selective therapeutic antibodies through tumor‐driven epitope spreading von Furuya, Genta, Katoh, Hiroto, Atsumi, Shinichiro, Hashimoto, Itaru, Komura, Daisuke, Hatanaka, Ryo, Senga, Shogo, Hayashi, Shuto, Akita, Shoji, Matsumura, Hirofumi, Miura, Akihiro, Mita, Hideaki, Nakakido, Makoto, Nagatoishi, Satoru, Sugiyama, Akira, Suzuki, Ryohei, Konishi, Hiroki, Yamamoto, Asami, Abe, Hiroyuki, Hiraoka, Nobuyoshi, Aoki, Kazunori, Kato, Yasumasa, Seto, Yasuyuki, Yoshimura, Chihoko, Miyadera, Kazutaka, Tsumoto, Kouhei, Ushiku, Tetsuo, Ishikawa, Shumpei

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Immunogenomic pan-cancer landscape reveals immune escape mechanisms and immunoediting histories von Mizuno, Shinichi, Yamaguchi, Rui, Hasegawa, Takanori, Hayashi, Shuto, Fujita, Masashi, Zhang, Fan, Koh, Youngil, Lee, Su-Yeon, Yoon, Sung-Soo, Shimizu, Eigo, Komura, Mitsuhiro, Fujimoto, Akihiro, Nagai, Momoko, Kato, Mamoru, Liang, Han, Miyano, Satoru, Zhang, Zemin, Nakagawa, Hidewaki, Imoto, Seiya

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ALPHLARD: a Bayesian method for analyzing HLA genes from whole genome sequence data von Hayashi, Shuto, Yamaguchi, Rui, Mizuno, Shinichi, Komura, Mitsuhiro, Miyano, Satoru, Nakagawa, Hidewaki, Imoto, Seiya

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Neoantimon: a multifunctional R package for identification of tumor-specific neoantigens von Hasegawa, Takanori, Hayashi, Shuto, Shimizu, Eigo, Mizuno, Shinichi, Niida, Atsushi, Yamaguchi, Rui, Miyano, Satoru, Nakagawa, Hidewaki, Imoto, Seiya

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Topological data analysis of protein structure and inter/intra-molecular interaction changes attributable to amino acid mutations von Koseki, Jun, Hayashi, Shuto, Kojima, Yasuhiro, Hirose, Haruka, Shimamura, Teppei

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Bayesian statistical method for detecting structural and topological diversity in polymorphic proteins von Hayashi, Shuto, Koseki, Jun, Shimamura, Teppei

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Classification of primary liver cancer with immunosuppression mechanisms and correlation with genomic alterations von Fujita, Masashi, Yamaguchi, Rui, Hasegawa, Takanori, Shimada, Shu, Arihiro, Koji, Hayashi, Shuto, Maejima, Kazuhiro, Nakano, Kaoru, Fujimoto, Akihiro, Ono, Atsushi, Aikata, Hiroshi, Ueno, Masaki, Hayami, Shinya, Tanaka, Hiroko, Miyano, Satoru, Yamaue, Hiroki, Chayama, Kazuaki, Kakimi, Kazuhiro, Tanaka, Shinji, Imoto, Seiya, Nakagawa, Hidewaki

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A case of hyalinizing trabecular tumor of the thyroid: diagnostic significance of PAX8-GLIS3 fusion von Hayashi, Shuto, Bandoh, Nobuyuki, Baba, Shogo, Hayashi, Misaki, Goto, Takashi, Takahara, Miki, Kato, Yasutaka, Aimono, Eriko, Nishihara, Hiroshi

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Analyzing Antibody Repertoire Using Next-Generation Sequencing and Machine Learning von Hayashi, Shuto, Ishikawa, Shumpei

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Quantifying immune-based counterselection of somatic mutations von Yang, Fan, Kim, Dae-Kyum, Nakagawa, Hidewaki, Hayashi, Shuto, Imoto, Seiya, Stein, Lincoln, Roth, Frederick P

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HLA Typing and Mutation Calling from Normal and Tumor Whole Genome Sequencing Data with ALPHLARD-NT von Hayashi, Shuto, Imoto, Seiya

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ALPHLARD-NT: Bayesian Method for Human Leukocyte Antigen Genotyping and Mutation Calling through Simultaneous Analysis of Normal and Tumor Whole-Genome Sequence Data von Hayashi, Shuto, Moriyama, Takuya, Yamaguchi, Rui, Mizuno, Shinichi, Komura, Mitsuhiro, Miyano, Satoru, Nakagawa, Hidewaki, Imoto, Seiya

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Internal carotid artery dissection caused by elongated styloid process von Hayashi, Shuto, Kumai, Takumi, Kishibe, Kan, Takahara, Miki, Katada, Akihiro, Hayashi, Tatsuya

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Salivary Duct Carcinoma Arising in the Submandibular Gland in a Patient with Neurofibromatosis Type 1 von Hayashi, Shuto, Bandoh, Nobuyuki, Hayashi, Misaki, Goto, Takashi, Kato, Yasutaka, Baba, Shogo, Aimono, Eriko, Nishihara, Hiroshi

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ALPHLARD-NT: Bayesian Method for Human Leukocyte Antigen Genotyping and Mutation Calling through Simultaneous Analysis of Normal and Tumor Whole-Genome Sequence Data von Hayashi, Shuto, Moriyama, Takuya, Yamaguchi, Rui, Mizuno, Shinichi, Komura, Mitsuhiro, Miyano, Satoru, Nakagawa, Hidewaki, Imoto, Seiya

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