References

Alexandrov, Ludmil B, Jaegil Kim, Nicholas J Haradhvala, Mi Ni Huang, Alvin Wei Tian Ng, Yang Wu, Arnoud Boot, et al. 2020. “The Repertoire of Mutational Signatures in Human Cancer.” Nature 578 (7793): 94–101.
Gaujoux, Renaud, and Cathal Seoighe. 2010. “A Flexible r Package for Nonnegative Matrix Factorization.” BMC Bioinformatics 11 (1): 367.
Hanahan, Douglas. 2011. “Hallmarks of Cancer: The Next Generation.” Cell, March, 29. https://doi.org/10.1016/j.cell.2011.02.013.
Kim, Jaegil, Kent W Mouw, Paz Polak, Lior Z Braunstein, Atanas Kamburov, Grace Tiao, David J Kwiatkowski, et al. 2016. “Somatic Ercc2 Mutations Are Associated with a Distinct Genomic Signature in Urothelial Tumors.” Nature Genetics 48 (6): 600.
Macintyre, Geoff, Teodora E Goranova, Dilrini De Silva, Darren Ennis, Anna M Piskorz, Matthew Eldridge, Daoud Sie, et al. 2018. “Copy Number Signatures and Mutational Processes in Ovarian Carcinoma.” Nature Genetics 50 (9): 1262–70.
Mayakonda, Anand, De-Chen Lin, Yassen Assenov, Christoph Plass, and H Phillip Koeffler. 2018. “Maftools: Efficient and Comprehensive Analysis of Somatic Variants in Cancer.” Genome Research 28 (11): 1747–56.
Tan, Vincent YF, and Cédric Févotte. 2012. “Automatic Relevance Determination in Nonnegative Matrix Factorization with the/Spl Beta/-Divergence.” IEEE Transactions on Pattern Analysis and Machine Intelligence 35 (7): 1592–1605.
Wang, Shixiang, Huimin Li, Minfang Song, Zaoke He, Tao Wu, Xuan Wang, Ziyu Tao, Kai Wu, and Xue-Song Liu. 2020. “Copy Number Signature Analyses in Prostate Cancer Reveal Distinct Etiologies and Clinical Outcomes.” medRxiv. https://doi.org/10.1101/2020.04.27.20082404.