TY - JOUR AU - Alexandrov, L. B. AU - Nik-Zainal, S. AU - Wedge, D. C. AU - Aparicio, S. A. AU - Behjati, S. AU - Biankin, A. V. PY - 2013 DA - 2013// TI - Signatures of mutational processes in human cancer JO - Nature VL - 500 UR - https://doi.org/10.1038/nature12477 DO - 10.1038/nature12477 ID - Alexandrov2013 ER - TY - JOUR AU - Olivier, M. AU - Hussain, S. P. AU - FC, C. AU - Hainaut, P. AU - Harris, C. C. PY - 2004 DA - 2004// TI - TP53 mutation spectra and load: a tool for generating hypotheses on the etiology of cancer JO - IARC Sci Publ VL - 157 ID - Olivier2004 ER - TY - JOUR AU - Alexandrov, L. B. AU - Nik-Zainal, S. AU - Wedge, D. C. AU - Campbell, P. J. AU - Stratton, M. R. PY - 2013 DA - 2013// TI - Deciphering signatures of mutational processes operative in human cancer JO - Cell Rep VL - 3 UR - https://doi.org/10.1016/j.celrep.2012.12.008 DO - 10.1016/j.celrep.2012.12.008 ID - Alexandrov2013 ER - TY - JOUR AU - Alexandrov, L. B. AU - Stratton, M. R. PY - 2014 DA - 2014// TI - Mutational signatures: the patterns of somatic mutations hidden in cancer genomes JO - Curr Opin Genet Dev VL - 24 UR - https://doi.org/10.1016/j.gde.2013.11.014 DO - 10.1016/j.gde.2013.11.014 ID - Alexandrov2014 ER - TY - JOUR AU - Helleday, T. AU - Eshtad, S. AU - Nik-Zainal, S. PY - 2014 DA - 2014// TI - Mechanisms underlying mutational signatures in human cancers JO - Nat Rev Genet VL - 15 UR - https://doi.org/10.1038/nrg3729 DO - 10.1038/nrg3729 ID - Helleday2014 ER - TY - JOUR AU - Nik-Zainal, S. AU - Alexandrov, L. B. AU - Wedge, D. C. AU - Van, L. P. AU - Greenman, C. D. AU - Raine, K. PY - 2012 DA - 2012// TI - Mutational processes molding the genomes of 21 breast cancers JO - Cell VL - 149 UR - https://doi.org/10.1016/j.cell.2012.04.024 DO - 10.1016/j.cell.2012.04.024 ID - Nik-Zainal2012 ER - TY - JOUR AU - Meier, B. AU - Cooke, S. L. AU - Weiss, J. AU - Bailly, A. P. AU - Alexandrov, L. B. AU - Marshall, J. PY - 2014 DA - 2014// TI - C. elegans whole-genome sequencing reveals mutational signatures related to carcinogens and DNA repair deficiency JO - Genome Res VL - 24 UR - https://doi.org/10.1101/gr.175547.114 DO - 10.1101/gr.175547.114 ID - Meier2014 ER - TY - JOUR AU - Olivier, M. AU - Weninger, A. AU - Ardin, M. AU - Huskova, H. AU - Castells, X. AU - Vallee, M. P. PY - 2014 DA - 2014// TI - Modelling mutational landscapes of human cancers in vitro JO - Sci Rep VL - 4 UR - https://doi.org/10.1038/srep04482 DO - 10.1038/srep04482 ID - Olivier2014 ER - TY - JOUR AU - Poon, S. L. AU - Pang, S. T. AU - McPherson, J. R. AU - Yu, W. AU - Huang, K. K. AU - Guan, P. PY - 2013 DA - 2013// TI - Genome-wide mutational signatures of aristolochic acid and its application as a screening tool JO - Sci Transl Med VL - 5 UR - https://doi.org/10.1126/scitranslmed.3006086 DO - 10.1126/scitranslmed.3006086 ID - Poon2013 ER - TY - JOUR AU - Severson, P. L. AU - Vrba, L. AU - Stampfer, M. R. AU - Futscher, B. W. PY - 2014 DA - 2014// TI - Exome-wide mutation profile in benzo[a]pyrene-derived post-stasis and immortal human mammary epithelial cells JO - Mutat Res Genet Toxicol Environ Mutagen VL - 775-776 UR - https://doi.org/10.1016/j.mrgentox.2014.10.011 DO - 10.1016/j.mrgentox.2014.10.011 ID - Severson2014 ER - TY - JOUR AU - Segovia, R. AU - Tam, A. S. AU - Stirling, P. C. PY - 2015 DA - 2015// TI - Dissecting genetic and environmental mutation signatures with model organisms JO - Trends Genet VL - 31 UR - https://doi.org/10.1016/j.tig.2015.04.001 DO - 10.1016/j.tig.2015.04.001 ID - Segovia2015 ER - TY - JOUR AU - Westcott, P. M. AU - Halliwill, K. D. AU - To, M. D. AU - Rashid, M. AU - Rust, A. G. AU - Keane, T. M. PY - 2015 DA - 2015// TI - The mutational landscapes of genetic and chemical models of Kras-driven lung cancer JO - Nature VL - 517 UR - https://doi.org/10.1038/nature13898 DO - 10.1038/nature13898 ID - Westcott2015 ER - TY - JOUR AU - Nassar, D. AU - Latil, M. AU - Boeckx, B. AU - Lambrechts, D. AU - Blanpain, C. PY - 2015 DA - 2015// TI - Genomic landscape of carcinogen-induced and genetically induced mouse skin squamous cell carcinoma JO - Nat Med VL - 21 UR - https://doi.org/10.1038/nm.3878 DO - 10.1038/nm.3878 ID - Nassar2015 ER - TY - JOUR AU - Goecks, J. AU - Nekrutenko, A. AU - Taylor, J. PY - 2010 DA - 2010// TI - Galaxy: a comprehensive approach for supporting accessible, reproducible, and transparent computational research in the life sciences JO - Genome Biol VL - 11 UR - https://doi.org/10.1186/gb-2010-11-8-r86 DO - 10.1186/gb-2010-11-8-r86 ID - Goecks2010 ER - TY - JOUR AU - Giardine, B. AU - Riemer, C. AU - Hardison, R. C. AU - Burhans, R. AU - Elnitski, L. AU - Shah, P. PY - 2005 DA - 2005// TI - Galaxy: a platform for interactive large-scale genome analysis JO - Genome Res VL - 15 UR - https://doi.org/10.1101/gr.4086505 DO - 10.1101/gr.4086505 ID - Giardine2005 ER - TY - STD TI - Blankenberg D, Von KG, Coraor N, Ananda G, Lazarus R, Mangan M, et al. Galaxy: a web-based genome analysis tool for experimentalists. Curr Protoc Mol Biol. 2010;Chapter 19:Unit-21. ID - ref16 ER - TY - JOUR AU - Wang, K. AU - Li, M. AU - Hakonarson, H. PY - 2010 DA - 2010// TI - ANNOVAR: functional annotation of genetic variants from high-throughput sequencing data JO - Nucleic Acids Res VL - 38 UR - https://doi.org/10.1093/nar/gkq603 DO - 10.1093/nar/gkq603 ID - Wang2010 ER - TY - JOUR AU - Gaujoux, R. AU - Seoighe, C. PY - 2010 DA - 2010// TI - A flexible R package for nonnegative matrix factorization JO - BMC Bioinformatics VL - 11 UR - https://doi.org/10.1186/1471-2105-11-367 DO - 10.1186/1471-2105-11-367 ID - Gaujoux2010 ER - TY - JOUR AU - Brunet, J. P. AU - Tamayo, P. AU - Golub, T. R. AU - Mesirov, J. P. PY - 2004 DA - 2004// TI - Metagenes and molecular pattern discovery using matrix factorization JO - Proc Natl Acad Sci U S A VL - 101 UR - https://doi.org/10.1073/pnas.0308531101 DO - 10.1073/pnas.0308531101 ID - Brunet2004 ER - TY - JOUR AU - Gunther, F. AU - Dudschig, C. AU - Kaup, B. PY - 2015 DA - 2015// TI - LSAfun--An R package for computations based on Latent Semantic Analysis JO - Behav Res Methods VL - 47 UR - https://doi.org/10.3758/s13428-014-0529-0 DO - 10.3758/s13428-014-0529-0 ID - Gunther2015 ER - TY - JOUR AU - Forbes, S. A. AU - Beare, D. AU - Gunasekaran, P. AU - Leung, K. AU - Bindal, N. AU - Boutselakis, H. PY - 2015 DA - 2015// TI - COSMIC: exploring the world’s knowledge of somatic mutations in human cancer JO - Nucleic Acids Res VL - 43 UR - https://doi.org/10.1093/nar/gku1075 DO - 10.1093/nar/gku1075 ID - Forbes2015 ER - TY - JOUR AU - Maitra, A. AU - Biswas, N. K. AU - Amin, K. AU - Kowtal, P. AU - Kumar, S. AU - Das, S. PY - 2013 DA - 2013// TI - Mutational landscape of gingivo-buccal oral squamous cell carcinoma reveals new recurrently-mutated genes and molecular subgroups JO - Nat Commun VL - 4 UR - https://doi.org/10.1038/ncomms3873 DO - 10.1038/ncomms3873 ID - Maitra2013 ER - TY - JOUR AU - Burns, M. B. AU - Temiz, N. A. AU - Harris, R. S. PY - 2013 DA - 2013// TI - Evidence for APOBEC3B mutagenesis in multiple human cancers JO - Nat Genet VL - 45 UR - https://doi.org/10.1038/ng.2701 DO - 10.1038/ng.2701 ID - Burns2013 ER -