Whole genome sequencing analysis for cancer genomics and precision medicine von Nakagawa, Hidewaki, Fujita, Masashi

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Comprehensive analysis of chromothripsis in 2,658 human cancers using whole-genome sequencing von Cortés-Ciriano, Isidro, Lee, Jake June-Koo, Xi, Ruibin, Jain, Dhawal, Jung, Youngsook L., Yang, Lixing, Gordenin, Dmitry, Klimczak, Leszek J., Zhang, Cheng-Zhong, Pellman, David S., Park, Peter J.

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Trans-ancestry genome-wide association meta-analysis of prostate cancer identifies new susceptibility loci and informs genetic risk prediction von Darst, Burcu F., Sheng, Xin, Olama, Ali Amin Al, Dadaev, Tokhir, Brook, Mark N., Hoffmann, Thomas J., Matsuda, Koichi, Wan, Peggy, Tammela, Teuvo L. J., Giles, Graham G., MacInnis, Robert J., Cybulski, Cezary, Wokołorczyk, Dominika, Lubiński, Jan, Hamdy, Freddie C., Martin, Richard M., Nordestgaard, Børge G., Nielsen, Sune F., Weischer, Maren, Chambers, Suzanne, Horvath, Lisa, Gronberg, Henrik, Aly, Markus, Nordström, Tobias, Pashayan, Nora, Travis, Ruth C., Riboli, Elio, Lin, Hui-Yi, Mucci, Lorelei A., Penney, Kathryn L., Turman, Constance, Tangen, Catherine M., Fleshner, Neil E., Finelli, Antonio, Koutros, Stella, Freeman, Laura E. Beane, Wolk, Alicja, Håkansson, Niclas, Hoover, Robert N., Sørensen, Karina Dalsgaard, Blot, William J., Zhang, Hong-Wei, Feng, Ninghan, Mao, Xueying, Schaid, Daniel J., Burnet, Neil, Schnoeller, Thomas, Kibel, Adam S., Cussenot, Olivier, Cancel-Tassin, Géraldine, Menegaux, Florence, Koudou, Yves Akoli, Stern, Mariana C., Fachal, Laura, Rosenstein, Barry S., Ostrer, Harry, Paulo, Paula, Watya, Stephen, Lubwama, Alexander, Llorca, Javier, Multigner, Luc, Kaneva, Radka, Slavov, Chavdar, Mitev, Vanio, Brenner, Hermann, Saum, Kai-Uwe, Klein, Eric A., Hsing, Ann W., Kittles, Rick A., Murphy, Adam B., Logothetis, Christopher J., Kim, Jeri, Steele, Linda, Pandha, Hardev, De Ruyck, Kim, Ost, Piet, Xu, Jianfeng, Lim, Jasmine, Teo, Soo-Hwang, Newcomb, Lisa F., Lin, Daniel W., Neslund-Dudas, Christine, Rybicki, Benjamin A., Gamulin, Marija, Lessel, Davor, Singhal, Sandeep, Joniau, Steven, Van den Broeck, Thomas, Martinez, Maria Elena, Larkin, Samantha, Aukim-Hastie, Claire, Bush, William S., Aldrich, Melinda C., Crawford, Dana C., Petrovics, Gyorgy, Casey, Graham, Sanderson, Maureen, Van Den Eeden, Stephen K., Easton, Douglas F., Eeles, Rosalind A.

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Comprehensive molecular characterization of mitochondrial genomes in human cancers von Yuan, Yuan, Ju, Young Seok, Kim, Youngwook, Li, Jun, Wang, Yumeng, Yoon, Christopher J., Yang, Yang, Martincorena, Inigo, Creighton, Chad J., Weinstein, John N., Xu, Yanxun, Han, Leng, Kim, Hyung-Lae, Nakagawa, Hidewaki, Park, Keunchil, Campbell, Peter J., Liang, Han

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The landscape of viral associations in human cancers von Zapatka, Marc, Borozan, Ivan, Brewer, Daniel S., Iskar, Murat, Grundhoff, Adam, Alawi, Malik, Desai, Nikita, Sültmann, Holger, Moch, Holger, Cooper, Colin S., Eils, Roland, Ferretti, Vincent, Lichter, Peter

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Genomic and Transcriptomic Profiling of Combined Hepatocellular and Intrahepatic Cholangiocarcinoma Reveals Distinct Molecular Subtypes von Xue, Ruidong, Chen, Lu, Zhang, Chong, Fujita, Masashi, Li, Ruoyan, Yan, Shu-Mei, Ong, Choon Kiat, Liao, Xiwen, Gao, Qiang, Sasagawa, Shota, Li, Yanmeng, Wang, Jincheng, Guo, Hua, Huang, Qi-Tao, Zhong, Qian, Tan, Jing, Qi, Lisha, Gong, Wenchen, Hong, Zhixian, Li, Meng, Zhao, Jingmin, Peng, Tao, Lu, Yinying, Lim, Kiat Hon Tony, Boot, Arnoud, Ono, Atushi, Chayama, Kazuaki, Zhang, Zemin, Rozen, Steve George, Teh, Bin Tean, Wang, Xin Wei, Nakagawa, Hidewaki, Zeng, Mu-Sheng, Bai, Fan, Zhang, Ning

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Pan-cancer analysis of whole genomes identifies driver rearrangements promoted by LINE-1 retrotransposition von Rodriguez-Martin, Bernardo, Alvarez, Eva G., Baez-Ortega, Adrian, Zamora, Jorge, Supek, Fran, Demeulemeester, Jonas, Santamarina, Martin, Ju, Young Seok, Temes, Javier, Garcia-Souto, Daniel, Detering, Harald, Li, Yilong, Rodriguez-Castro, Jorge, Dueso-Barroso, Ana, Bruzos, Alicia L., Dentro, Stefan C., Blanco, Miguel G., Contino, Gianmarco, Ardeljan, Daniel, Tojo, Marta, Roberts, Nicola D., Zumalave, Sonia, Edwards, Paul A., Weischenfeldt, Joachim, Puiggròs, Montserrat, Chong, Zechen, Chen, Ken, Lee, Eunjung Alice, Wala, Jeremiah A., Raine, Keiran M., Butler, Adam, Waszak, Sebastian M., Navarro, Fabio C. P., Schumacher, Steven E., Monlong, Jean, Maura, Francesco, Bolli, Niccolo, Bourque, Guillaume, Gerstein, Mark, Park, Peter J., Wedge, David C., Beroukhim, Rameen, Torrents, David, Korbel, Jan O., Martincorena, Iñigo, Fitzgerald, Rebecca C., Van Loo, Peter, Kazazian, Haig H., Burns, Kathleen H., Campbell, Peter J., Tubio, Jose M. C.

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A deep learning system accurately classifies primary and metastatic cancers using passenger mutation patterns von Jiao, Wei, Atwal, Gurnit, Polak, Paz, Karlic, Rosa, Cuppen, Edwin, Danyi, Alexandra, de Ridder, Jeroen, van Herpen, Carla, Lolkema, Martijn P., Steeghs, Neeltje, Getz, Gad, Morris, Quaid D., Stein, Lincoln D.

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Clinical significance of the mutational landscape and fragmentation of circulating tumor DNA in renal cell carcinoma von Yamamoto, Yoshiyuki, Uemura, Motohide, Fujita, Masashi, Maejima, Kazuhiro, Koh, Yoko, Matsushita, Makoto, Nakano, Kosuke, Hayashi, Yujiro, Wang, Cong, Ishizuya, Yu, Kinouchi, Toshiro, Hayashi, Takuji, Matsuzaki, Kyosuke, Jingushi, Kentaro, Kato, Taigo, Kawashima, Atsunari, Ujike, Takeshi, Nagahara, Akira, Fujita, Kazutoshi, Imamura, Ryoichi, Nakagawa, Hidewaki, Nonomura, Norio

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Association of a novel long non‐coding RNA in 8q24 with prostate cancer susceptibility von Chung, Suyoun, Nakagawa, Hidewaki, Uemura, Motohide, Piao, Lianhua, Ashikawa, Kyota, Hosono, Naoya, Takata, Ryo, Akamatsu, Shusuke, Kawaguchi, Takahisa, Morizono, Takashi, Tsunoda, Tatsuhiko, Daigo, Yataro, Matsuda, Koichi, Kamatani, Naoyuki, Nakamura, Yusuke, Kubo, Michiaki

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Comprehensive analysis of indels in whole-genome microsatellite regions and microsatellite instability across 21 cancer types von Fujimoto, Akihiro, Fujita, Masashi, Hasegawa, Takanori, Wong, Jing Hao, Maejima, Kazuhiro, Oku-Sasaki, Aya, Nakano, Kaoru, Shiraishi, Yuichi, Miyano, Satoru, Yamamoto, Go, Akagi, Kiwamu, Imoto, Seiya, Nakagawa, Hidewaki

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Genome-wide association study identifies a susceptibility locus for HCV-induced hepatocellular carcinoma von Kumar, Vinod, Kato, Naoya, Urabe, Yuji, Takahashi, Atsushi, Muroyama, Ryosuke, Hosono, Naoya, Otsuka, Motoyuki, Tateishi, Ryosuke, Omata, Masao, Nakagawa, Hidewaki, Koike, Kazuhiko, Kamatani, Naoyuki, Kubo, Michiaki, Nakamura, Yusuke, Matsuda, Koichi

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Genomic footprints of activated telomere maintenance mechanisms in cancer von Sieverling, Lina, Hong, Chen, Koser, Sandra D., Ginsbach, Philip, Kleinheinz, Kortine, Hutter, Barbara, Braun, Delia M., Cortés-Ciriano, Isidro, Xi, Ruibin, Kabbe, Rolf, Park, Peter J., Eils, Roland, Schlesner, Matthias, Brors, Benedikt, Rippe, Karsten, Jones, David T. W., Feuerbach, Lars

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Pathway and network analysis of more than 2500 whole cancer genomes von Reyna, Matthew A., Haan, David, Paczkowska, Marta, Verbeke, Lieven P. C., Vazquez, Miguel, Kahraman, Abdullah, Pulido-Tamayo, Sergio, Barenboim, Jonathan, Wadi, Lina, Dhingra, Priyanka, Shrestha, Raunak, Getz, Gad, Lawrence, Michael S., Pedersen, Jakob Skou, Rubin, Mark A., Wheeler, David A., Brunak, Søren, Izarzugaza, Jose M. G., Khurana, Ekta, Marchal, Kathleen, von Mering, Christian, Sahinalp, S. Cenk, Valencia, Alfonso, Reimand, Jüri, Stuart, Joshua M., Raphael, Benjamin J.

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Novel 5α‐steroid reductase (SRD5A3, type‐3) is overexpressed in hormone‐refractory prostate cancer von Uemura, Motohide, Tamura, Kenji, Chung, Suyoun, Honma, Seijiro, Okuyama, Akihiko, Nakamura, Yusuke, Nakagawa, Hidewaki

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Genome-wide association study identifies five new susceptibility loci for prostate cancer in the Japanese population von Ogawa, Osamu, Tsunoda, Tatsuhiko, Inazawa, Johji, Kubo, Michiaki, Takata, Ryo, Fujioka, Tomoaki, Kamatani, Naoyuki, Takahashi, Atsushi, Akamatsu, Shusuke, Hosono, Naoya, Kawaguchi, Takahisa, Nakagawa, Hidewaki, Nakamura, Yusuke

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Whole-genome sequencing with long reads reveals complex structure and origin of structural variation in human genetic variations and somatic mutations in cancer von Fujimoto, Akihiro, Wong, Jing Hao, Yoshii, Yukiko, Akiyama, Shintaro, Tanaka, Azusa, Yagi, Hitomi, Shigemizu, Daichi, Nakagawa, Hidewaki, Mizokami, Masashi, Shimada, Mihoko

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Whole-genome mutational landscape of liver cancers displaying biliary phenotype reveals hepatitis impact and molecular diversity von Fujimoto, Akihiro, Furuta, Mayuko, Shiraishi, Yuichi, Gotoh, Kunihito, Kawakami, Yoshiiku, Arihiro, Koji, Nakamura, Toru, Ueno, Masaki, Ariizumi, Shun-ichi, Hai Nguyen, Ha, Shigemizu, Daichi, Abe, Tetsuo, Boroevich, Keith A., Nakano, Kaoru, Sasaki, Aya, Kitada, Rina, Maejima, Kazihiro, Yamamoto, Yujiro, Tanaka, Hiroko, Shibuya, Tetsuo, Shibata, Tatsuhiro, Ojima, Hidenori, Shimada, Kazuaki, Hayami, Shinya, Shigekawa, Yoshinobu, Aikata, Hiroshi, Ohdan, Hideki, Marubashi, Shigeru, Yamada, Terumasa, Kubo, Michiaki, Hirano, Satoshi, Ishikawa, Osamu, Yamamoto, Masakazu, Yamaue, Hiroki, Chayama, Kazuaki, Miyano, Satoru, Tsunoda, Tatsuhiko, Nakagawa, Hidewaki

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Hereditary cancer variants and homologous recombination deficiency in biliary tract cancer von Okawa, Yuki, Iwasaki, Yusuke, Johnson, Todd A., Ebata, Nobutaka, Inai, Chihiro, Endo, Mikiko, Maejima, Kazuhiro, Sasagawa, Shota, Fujita, Masashi, Matsuda, Koichi, Murakami, Yoshinori, Nakamura, Toru, Hirano, Satoshi, Momozawa, Yukihide, Nakagawa, Hidewaki

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Prognostic significance of pathogenic variants in BRCA1, BRCA2, ATM and PALB2 genes in men undergoing hormonal therapy for advanced prostate cancer von Kimura, Hiroko, Mizuno, Kei, Shiota, Masaki, Narita, Shintaro, Terada, Naoki, Fujimoto, Naohiro, Ogura, Keiji, Hatano, Shotaro, Iwasaki, Yusuke, Hakozaki, Nozomi, Ishitoya, Satoshi, Sumiyoshi, Takayuki, Goto, Takayuki, Kobayashi, Takashi, Nakagawa, Hidewaki, Kamoto, Toshiyuki, Eto, Masatoshi, Habuchi, Tomonori, Ogawa, Osamu, Momozawa, Yukihide, Akamatsu, Shusuke

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