CLCA2 as a p53-Inducible Senescence Mediator

by Chizu Tanikawa, Hidewaki Nakagawa, Yoichi Furukawa, Yusuke Nakamura, Koichi Matsuda
Published 2012-02-01

ALPHLARD: a Bayesian method for analyzing HLA genes from whole genome sequence data

by Shuto Hayashi, Rui Yamaguchi, Shinichi Mizuno, Mitsuhiro Komura, Satoru Miyano, Hidewaki Nakagawa, Seiya Imoto
Published 2018-11-01

Quantifying immune-based counterselection of somatic mutations.

by Fan Yang, Dae-Kyum Kim, Hidewaki Nakagawa, Shuto Hayashi, Seiya Imoto, Lincoln Stein, Frederick P Roth
Published 2019-07-01

Identification of intermediate-sized deletions and inference of their impact on gene expression in a human population

by Jing Hao Wong, Daichi Shigemizu, Yukiko Yoshii, Shintaro Akiyama, Azusa Tanaka, Hidewaki Nakagawa, Shu Narumiya, Akihiro Fujimoto
Published 2019-07-01

Deep immunophenotyping at the single-cell level identifies a combination of anti-IL-17 and checkpoint blockade as an effective treatment in a preclinical model of data-guided perso...

by Yukari Kobayashi, Kazuhiro Kakimi, Koji Nagaoka, Akihiro Hosoi, Masataka Shirai, Kiyomi Taniguchi, Changbo Sun, Kazuhiro Maejima, Hidewaki Nakagawa, Sachiyo Nomura
Published 2020-07-01

Identification of HLA-A24-Restricted Novel T Cell Epitope Peptides Derived from P-Cadherin and Kinesin Family Member 20A

by Ryuji Osawa, Takuya Tsunoda, Sachiko Yoshimura, Tomohisa Watanabe, Motoki Miyazawa, Masaji Tani, Kazuyoshi Takeda, Hidewaki Nakagawa, Yusuke Nakamura, Hiroki Yamaue
Published 2012-01-01

Whole-genome sequencing with long reads reveals complex structure and origin of structural variation in human genetic variations and somatic mutations in cancer

by Akihiro Fujimoto, Jing Hao Wong, Yukiko Yoshii, Shintaro Akiyama, Azusa Tanaka, Hitomi Yagi, Daichi Shigemizu, Hidewaki Nakagawa, Masashi Mizokami, Mihoko Shimada
Published 2021-04-01

Molecular Classification and Tumor Microenvironment Characterization of Gallbladder Cancer by Comprehensive Genomic and Transcriptomic Analysis

by Nobutaka Ebata, Masashi Fujita, Shota Sasagawa, Kazuhiro Maejima, Yuki Okawa, Yutaka Hatanaka, Tomoko Mitsuhashi, Ayako Oosawa-Tatsuguchi, Hiroko Tanaka, Satoru Miyano, Toru Nakamura, Satoshi Hirano, Hidewaki Nakagawa
Published 2021-02-01

Genetic characterization of pancreatic cancer patients and prediction of carrier status of germline pathogenic variants in cancer-predisposing genes

by Keijiro Mizukami, Yusuke Iwasaki, Eiryo Kawakami, Makoto Hirata, Yoichiro Kamatani, Koichi Matsuda, Mikiko Endo, Kokichi Sugano, Teruhiko Yoshida, Yoshinori Murakami, Hidewaki Nakagawa, Amanda B. Spurdle, Yukihide Momozawa
Published 2020-10-01

Somatic mutation landscape reveals differential variability of cell-of-origin for primary liver cancer

by Kyungsik Ha, Masashi Fujita, Rosa Karlić, Sungmin Yang, Ruidong Xue, Chong Zhang, Fan Bai, Ning Zhang, Yujin Hoshida, Paz Polak, Hidewaki Nakagawa, Hong-Gee Kim, Hwajin Lee
Published 2020-02-01

The Transcriptional Landscape of p53 Signalling Pathway

by Chizu Tanikawa, Yao-zhong Zhang, Ryuta Yamamoto, Yusuke Tsuda, Masami Tanaka, Yuki Funauchi, Jinichi Mori, Seiya Imoto, Rui Yamaguchi, Yusuke Nakamura, Satoru Miyano, Hidewaki Nakagawa, Koichi Matsuda
Published 2017-06-01

Exome Analyses of Long QT Syndrome Reveal Candidate Pathogenic Mutations in Calmodulin-Interacting Genes.

by Daichi Shigemizu, Takeshi Aiba, Hidewaki Nakagawa, Kouichi Ozaki, Fuyuki Miya, Wataru Satake, Tatsushi Toda, Yoshihiro Miyamoto, Akihiro Fujimoto, Yutaka Suzuki, Michiaki Kubo, Tatsuhiko Tsunoda, Wataru Shimizu, Toshihiro Tanaka
Published 2015-01-01

A comprehensive peptidome profiling technology for the identification of early detection biomarkers for lung adenocarcinoma.

by Koji Ueda, Naomi Saichi, Sachiko Takami, Daechun Kang, Atsuhiko Toyama, Yataro Daigo, Nobuhisa Ishikawa, Nobuoki Kohno, Kenji Tamura, Taro Shuin, Masato Nakayama, Taka-Aki Sato, Yusuke Nakamura, Hidewaki Nakagawa
Published 2011-01-01

High-coverage whole-genome analysis of 1220 cancers reveals hundreds of genes deregulated by rearrangement-mediated cis-regulatory alterations

by Yiqun Zhang, Fengju Chen, Nuno A. Fonseca, Yao He, Masashi Fujita, Hidewaki Nakagawa, Zemin Zhang, Alvis Brazma, PCAWG Transcriptome Working Group, PCAWG Structural Variation Working Group, Chad J. Creighton, PCAWG Consortium
Published 2020-02-01

Whole genome sequencing analysis identifies recurrent structural alterations in esophageal squamous cell carcinoma

by Munmee Dutta, Hidewaki Nakagawa, Hiroaki Kato, Kazuhiro Maejima, Shota Sasagawa, Kaoru Nakano, Aya Sasaki-Oku, Akihiro Fujimoto, Raúl Nicolás Mateos, Ashwini Patil, Hiroko Tanaka, Satoru Miyano, Takushi Yasuda, Kenta Nakai, Masashi Fujita
Published 2020-06-01

Analysis of mutational and proteomic heterogeneity of gastric cancer suggests an effective pipeline to monitor post-treatment tumor burden using circulating tumor DNA.

by Noriyuki Sasaki, Takeshi Iwaya, Takehiro Chiba, Masashi Fujita, Zhenlin Ju, Fumitaka Endo, Mizunori Yaegashi, Tsuyoshi Hachiya, Ryo Sugimoto, Tamotsu Sugai, Doris R Siwak, Lance A Liotta, Yiling Lu, Gordon B Mills, Hidewaki Nakagawa, Satoshi S Nishizuka
Published 2020-01-01

Genomic analysis of pancreatic juice DNA assesses malignant risk of intraductal papillary mucinous neoplasm of pancreas

by Raúl N. Mateos, Hidewaki Nakagawa, Seiko Hirono, Shinichi Takano, Mitsuharu Fukasawa, Akio Yanagisawa, Satoru Yasukawa, Kazuhiro Maejima, Aya Oku‐Sasaki, Kaoru Nakano, Munmee Dutta, Hiroko Tanaka, Satoru Miyano, Nobuyuki Enomoto, Hiroki Yamaue, Kenta Nakai, Masashi Fujita
Published 2019-08-01

Publisher Correction: IMSindel: An accurate intermediate-size indel detection tool incorporating de novo assembly and gapped global-local alignment with split read analysis

by Daichi Shigemizu, Fuyuki Miya, Shintaro Akiyama, Shujiro Okuda, Keith A. Boroevich, Akihiro Fujimoto, Hidewaki Nakagawa, Kouichi Ozaki, Shumpei Niida, Yonehiro Kanemura, Nobuhiko Okamoto, Shinji Saitoh, Mitsuhiro Kato, Mami Yamasaki, Tatsuo Matsunaga, Hideki Mutai, Kenjiro Kosaki, Tatsuhiko Tsunoda
Published 2018-07-01

Immunogenomic pan-cancer landscape reveals immune escape mechanisms and immunoediting histories

by Shinichi Mizuno, Rui Yamaguchi, Takanori Hasegawa, Shuto Hayashi, Masashi Fujita, Fan Zhang, Youngil Koh, Su-Yeon Lee, Sung-Soo Yoon, Eigo Shimizu, Mitsuhiro Komura, Akihiro Fujimoto, Momoko Nagai, Mamoru Kato, Han Liang, Satoru Miyano, Zemin Zhang, Hidewaki Nakagawa, Seiya Imoto
Published 2021-08-01

Integrative immunogenomic analysis of gastric cancer dictates novel immunological classification and the functional status of tumor‐infiltrating cells

by Yasuyoshi Sato, Ikuo Wada, Kosuke Odaira, Akihiro Hosoi, Yukari Kobayashi, Koji Nagaoka, Takahiro Karasaki, Hirokazu Matsushita, Koichi Yagi, Hiroharu Yamashita, Masashi Fujita, Shuichi Watanabe, Takashi Kamatani, Fuyuki Miya, Junichi Mineno, Hidewaki Nakagawa, Tatsuhiko Tsunoda, Shunji Takahashi, Yasuyuki Seto, Kazuhiro Kakimi
Published 2020-01-01