Data di Pubblicazione:
2020
Abstract:
: The discovery of driver mutations is one of the key motivations for cancer genome sequencing. Here, as part of the ICGC/TCGA Pan-Cancer Analysis of Whole Genomes (PCAWG) Consortium, which aggregated whole genome sequencing data from 2658 cancers across 38 tumour types, we describe DriverPower, a software package that uses mutational burden and functional impact evidence to identify driver mutations in coding and non-coding sites within cancer whole genomes. Using a total of 1373 genomic features derived from public sources, DriverPower's background mutation model explains up to 93% of the regional variance in the mutation rate across multiple tumour types. By incorporating functional impact scores, we are able to further increase the accuracy of driver discovery. Testing across a collection of 2583 cancer genomes from the PCAWG project, DriverPower identifies 217 coding and 95 non-coding driver candidates. Comparing to six published methods used by the PCAWG Drivers and Functional Interpretation Working Group, DriverPower has the highest F1 score for both coding and non-coding driver discovery. This demonstrates that DriverPower is an effective framework for computational driver discovery.
Tipologia CRIS:
1.1 Articolo in rivista
Elenco autori:
Shuai, Shimin; Abascal, Federico; Amin, Samirkumar B.; Bader, Gary D.; Bandopadhayay, Pratiti; Barenboim, Jonathan; Beroukhim, Rameen; Bertl, Johanna; Boroevich, Keith A.; Brunak, Søren; Campbell, Peter J.; Carlevaro-Fita, Joana; Chakravarty, Dimple; Chan, Calvin Wing Yiu; Chen, Ken; Choi, Jung Kyoon; Deu-Pons, Jordi; Dhingra, Priyanka; Diamanti, Klev; Feuerbach, Lars; Fink, J. Lynn; Fonseca, Nuno A.; Frigola, Joan; Gambacorti-Passerini, Carlo; Garsed, Dale W.; Gerstein, Mark; Getz, Gad; Guo, Qianyun; Gut, Ivo G.; Haan, David; Hamilton, Mark P.; Haradhvala, Nicholas J.; Harmanci, Arif O.; Helmy, Mohamed; Herrmann, Carl; Hess, Julian M.; Hobolth, Asger; Hodzic, Ermin; Hong, Chen; Hornshøj, Henrik; Isaev, Keren; Izarzugaza, Jose M. G.; Johnson, Rory; Johnson, Todd A.; Juul, Malene; Juul, Randi Istrup; Kahles, Andre; Kahraman, Abdullah; Kellis, Manolis; Khurana, Ekta; Kim, Jaegil; Kim, Jong K.; Kim, Youngwook; Komorowski, Jan; Korbel, Jan O.; Kumar, Sushant; Lanzós, Andrés; Larsson, Erik; Lawrence, Michael S.; Lee, Donghoon; Lehmann, Kjong-Van; Li, Shantao; Li, Xiaotong; Lin, Ziao; Liu, Eric Minwei; Lochovsky, Lucas; Lou, Shaoke; Madsen, Tobias; Marchal, Kathleen; Martincorena, Iñigo; Martinez-Fundichely, Alexander; Maruvka, Yosef E.; Mcgillivray, Patrick D.; Meyerson, William; Muiños, Ferran; Mularoni, Loris; Nakagawa, Hidewaki; Nielsen, Morten Muhlig; Paczkowska, Marta; Park, Keunchil; Park, Kiejung; Pedersen, Jakob Skou; Pons, Tirso; Pulido-Tamayo, Sergio; Raphael, Benjamin J.; Reimand, Jüri; Reyes-Salazar, Iker; Reyna, Matthew A.; Rheinbay, Esther; Rubin, Mark A.; Rubio-Perez, Carlota; Sahinalp, S. Cenk; Saksena, Gordon; Salichos, Leonidas; Sander, Chris; Schumacher, Steven E.; Shackleton, Mark; Shapira, Ofer; Shen, Ciyue; Shrestha, Raunak; Shuai, Shimin; Sidiropoulos, Nikos; Sieverling, Lina; Sinnott-Armstrong, Nasa; Stein, Lincoln D.; Stuart, Joshua M.; Tamborero, David; Tiao, Grace; Tsunoda, Tatsuhiko; Umer, Husen M.; Uusküla-Reimand, Liis; Valencia, Alfonso; Vazquez, Miguel; Verbeke, Lieven P. C.; Wadelius, Claes; Wadi, Lina; Wang, Jiayin; Warrell, Jonathan; Waszak, Sebastian M.; Weischenfeldt, Joachim; Wheeler, David A.; Wu, Guanming; Yu, Jun; Zhang, Jing; Zhang, Xuanping; Zhang, Yan; Zhao, Zhongming; Zou, Lihua; von Mering, Christian; Gallinger, Steven; Stein, Lincoln D.; Aaltonen, Lauri A.; Abascal, Federico; Abeshouse, Adam; Aburatani, Hiroyuki; Adams, David J.; Agrawal, Nishant; Ahn, Keun Soo; Ahn, Sung-Min; Aikata, Hiroshi; Akbani, Rehan; Akdemir, Kadir C.; Al-Ahmadie, Hikmat; Al-Sedairy, Sultan T.; Al-Shahrour, Fatima; Alawi, Malik; Albert, Monique; Aldape, Kenneth; Alexandrov, Ludmil B.; Ally, Adrian; Alsop, Kathryn; Alvarez, Eva G.; Amary, Fernanda; Amin, Samirkumar B.; Aminou, Brice; Ammerpohl, Ole; Anderson, Matthew J.; Ang, Yeng; Antonello, Davide; Anur, Pavana; Aparicio, Samuel; Appelbaum, Elizabeth L.; Arai, Yasuhito; Aretz, Axel; Arihiro, Koji; Ariizumi, Shun-ichi; Armenia, Joshua; Arnould, Laurent; Asa, Sylvia; Assenov, Yassen; Atwal, Gurnit; Aukema, Sietse; Auman, J. Todd; Aure, Miriam R. R.; Awadalla, Philip; Aymerich, Marta; Bader, Gary D.; Baez-Ortega, Adrian; Bailey, Matthew H.; Bailey, Peter J.; Balasundaram, Miruna; Balu, Saianand; Bandopadhayay, Pratiti; Banks, Rosamonde E.; Barbi, Stefano; Barbour, Andrew P.; Barenboim, Jonathan; Barnholtz-Sloan, Jill; Barr, Hugh; Barrera, Elisabet; Bartlett, John; Bartolome, Javier; Bassi, Claudio; Bathe, Oliver F.; Baumhoer, Daniel; Bavi, Prashant; Baylin, Stephen B.; Bazant, Wojciech; Beardsmore, Duncan; Beck, Timothy A.; Behjati, Sam; Behren, Andreas; Niu, Beifang; Bell, Cindy; Beltran, Sergi; Benz, Christopher; Berchuck, Andrew; Bergmann, Anke K.; Bergstrom, Erik N.; Berman, Benjamin P.; Berney, Daniel M.; Bernhart, Stephan H.; Beroukhim, Rameen; Berrios, Mario; Bersani, Samantha; Bertl, Johanna; Betancourt, Miguel; Bhandari, Vinayak; Bhosle, Shriram G.; Biankin, Andrew V.; Bieg, Matthias; Bigner, Darell; Bind
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