Pan-cancer analysis of whole genomes von Campbell, Peter J, Getz, Gad, Korbel, Jan O, Stuart, Joshua M, Jennings, Jennifer L, Stein, Lincoln D, Perry, Marc D

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The repertoire of mutational signatures in human cancer von Alexandrov, Ludmil B., Kim, Jaegil, Haradhvala, Nicholas J., Huang, Mi Ni, Tian Ng, Alvin Wei, Wu, Yang, Boot, Arnoud, Covington, Kyle R., Gordenin, Dmitry A., Bergstrom, Erik N., Islam, S. M. Ashiqul, Lopez-Bigas, Nuria, Klimczak, Leszek J., McPherson, John R., Morganella, Sandro, Sabarinathan, Radhakrishnan, Wheeler, David A., Mustonen, Ville, Getz, Gad, Rozen, Steven G., Stratton, Michael R.

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The evolutionary history of 2,658 cancers von Gerstung, Moritz, Jolly, Clemency, Leshchiner, Ignaty, Dentro, Stefan C., Gonzalez, Santiago, Rosebrock, Daniel, Mitchell, Thomas J., Rubanova, Yulia, Anur, Pavana, Yu, Kaixian, Tarabichi, Maxime, Deshwar, Amit, Wintersinger, Jeff, Kleinheinz, Kortine, Vázquez-García, Ignacio, Haase, Kerstin, Jerman, Lara, Sengupta, Subhajit, Macintyre, Geoff, Malikic, Salem, Donmez, Nilgun, Livitz, Dimitri G., Cmero, Marek, Demeulemeester, Jonas, Schumacher, Steven, Fan, Yu, Yao, Xiaotong, Lee, Juhee, Schlesner, Matthias, Boutros, Paul C., Bowtell, David D., Zhu, Hongtu, Getz, Gad, Imielinski, Marcin, Beroukhim, Rameen, Sahinalp, S. Cenk, Ji, Yuan, Peifer, Martin, Markowetz, Florian, Mustonen, Ville, Yuan, Ke, Wang, Wenyi, Morris, Quaid D., Spellman, Paul T., Wedge, David C., Van Loo, Peter

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Patterns of somatic structural variation in human cancer genomes von Li, Yilong, Roberts, Nicola D., Wala, Jeremiah A., Shapira, Ofer, Schumacher, Steven E., Kumar, Kiran, Khurana, Ekta, Waszak, Sebastian, Korbel, Jan O., Haber, James E., Imielinski, Marcin, Weischenfeldt, Joachim, Beroukhim, Rameen, Campbell, Peter J.

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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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Genomic basis for RNA alterations in cancer von Calabrese, Claudia, Davidson, Natalie R., Demircioğlu, Deniz, Fonseca, Nuno A., He, Yao, Kahles, André, Lehmann, Kjong-Van, Liu, Fenglin, Shiraishi, Yuichi, Soulette, Cameron M., Urban, Lara, Greger, Liliana, Li, Siliang, Liu, Dongbing, Perry, Marc D., Xiang, Qian, Zhang, Fan, Zhang, Junjun, Bailey, Peter, Erkek, Serap, Hoadley, Katherine A., Hou, Yong, Huska, Matthew R., Kilpinen, Helena, Korbel, Jan O., Marin, Maximillian G., Markowski, Julia, Nandi, Tannistha, Pan-Hammarström, Qiang, Pedamallu, Chandra Sekhar, Siebert, Reiner, Stark, Stefan G., Su, Hong, Tan, Patrick, Waszak, Sebastian M., Yung, Christina, Zhu, Shida, Awadalla, Philip, Creighton, Chad J., Meyerson, Matthew, Ouellette, B. F. Francis, Wu, Kui, Yang, Huanming, Brazma, Alvis, Brooks, Angela N., Göke, Jonathan, Rätsch, Gunnar, Schwarz, Roland F., Stegle, Oliver, Zhang, Zemin

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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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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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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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Disruption of chromatin folding domains by somatic genomic rearrangements in human cancer von Akdemir, Kadir C., Le, Victoria T., Chandran, Sahaana, Li, Yilong, Verhaak, Roel G., Beroukhim, Rameen, Campbell, Peter J., Chin, Lynda, Dixon, Jesse R., Futreal, P. Andrew

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Integrative pathway enrichment analysis of multivariate omics data von Paczkowska, Marta, Barenboim, Jonathan, Sintupisut, Nardnisa, Fox, Natalie S., Zhu, Helen, Abd-Rabbo, Diala, Mee, Miles W., Boutros, Paul C., Reimand, Jüri

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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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Sex differences in oncogenic mutational processes von Li, Constance H., Prokopec, Stephenie D., Sun, Ren X., Yousif, Fouad, Schmitz, Nathaniel, Boutros, Paul C.

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High-coverage whole-genome analysis of 1220 cancers reveals hundreds of genes deregulated by rearrangement-mediated cis-regulatory alterations von Zhang, Yiqun, Chen, Fengju, Fonseca, Nuno A., He, Yao, Fujita, Masashi, Nakagawa, Hidewaki, Zhang, Zemin, Brazma, Alvis, Creighton, Chad J.

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Cancer LncRNA Census reveals evidence for deep functional conservation of long noncoding RNAs in tumorigenesis von Carlevaro-Fita, Joana, Lanzós, Andrés, Feuerbach, Lars, Hong, Chen, Mas-Ponte, David, Pedersen, Jakob Skou, Johnson, Rory

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Reconstructing evolutionary trajectories of mutation signature activities in cancer using TrackSig von Rubanova, Yulia, Shi, Ruian, Harrigan, Caitlin F., Li, Roujia, Wintersinger, Jeff, Sahin, Nil, Deshwar, Amit G., Morris, Quaid D.

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Inferring structural variant cancer cell fraction von Cmero, Marek, Yuan, Ke, Ong, Cheng Soon, Schröder, Jan, Corcoran, Niall M., Papenfuss, Tony, Hovens, Christopher M., Markowetz, Florian, Macintyre, Geoff

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Combined burden and functional impact tests for cancer driver discovery using DriverPower von Shuai, Shimin, Gallinger, Steven, Stein, Lincoln D.

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Butler enables rapid cloud-based analysis of thousands of human genomes von Yakneen, Sergei, Waszak, Sebastian M., Gertz, Michael, Korbel, Jan O.

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