TY - JOUR AU - Torre, L. A. AU - Bray, F. AU - Siegel, R. L. AU - Ferlay, J. AU - Lortet-Tieulent, J. AU - Jemal, A. PY - 2015 DA - 2015// TI - Global cancer statistics, 2012 JO - CA Cancer J Clin VL - 65 UR - https://doi.org/10.3322/caac.21262 DO - 10.3322/caac.21262 ID - Torre2015 ER - TY - STD TI - Altekruse SF1, Devesa SS, Dickie LA, McGlynn KA, Kleiner DE. Histological classification of liver and intrahepatic bile duct cancers in SEER registries. J Registry Manag 2011;38(4):201–205. ID - ref2 ER - TY - JOUR AU - Llovet, J. M. AU - Ricci, S. AU - Mazzaferro, V. AU - Hilgard, P. AU - Gane, E. AU - Blanc, J. F. PY - 2008 DA - 2008// TI - Sorafenib in advanced hepatocellular carcinoma JO - N Engl J Med VL - 359 UR - https://doi.org/10.1056/NEJMoa0708857 DO - 10.1056/NEJMoa0708857 ID - Llovet2008 ER - TY - JOUR AU - Cheng, A. L. AU - Kang, Y. K. AU - Chen, Z. AU - Tsao, C. J. AU - Qin, S. AU - Kim, J. S. PY - 2009 DA - 2009// TI - Efficacy and safety of sorafenib in patients in the Asia-Pacific region with advanced hepatocellular carcinoma: a phase III randomised, double-blind, placebo-controlled trial JO - Lancet Oncol VL - 10 UR - https://doi.org/10.1016/S1470-2045(08)70285-7 DO - 10.1016/S1470-2045(08)70285-7 ID - Cheng2009 ER - TY - JOUR AU - Llovet, J. M. AU - Pena, C. E. AU - Lathia, C. D. AU - Shan, M. AU - Meinhardt, G. AU - Bruix, J. PY - 2012 DA - 2012// TI - Plasma biomarkers as predictors of outcome in patients with advanced hepatocellular carcinoma JO - Clin Cancer Res VL - 18 UR - https://doi.org/10.1158/1078-0432.CCR-11-2175 DO - 10.1158/1078-0432.CCR-11-2175 ID - Llovet2012 ER - TY - JOUR AU - Horwitz, E. AU - Stein, I. AU - Andreozzi, M. AU - Nemeth, J. AU - Shoham, A. AU - Pappo, O. PY - 2014 DA - 2014// TI - Human and mouse VEGFA-amplified hepatocellular carcinomas are highly sensitive to sorafenib treatment JO - Cancer Discov VL - 4 UR - https://doi.org/10.1158/2159-8290.CD-13-0782 DO - 10.1158/2159-8290.CD-13-0782 ID - Horwitz2014 ER - TY - JOUR AU - Bruix, J. AU - Cheng, A. L. AU - Meinhardt, G. AU - Nakajima, K. AU - Sanctis, Y. AU - Llovet, J. PY - 2017 DA - 2017// TI - Prognostic factors and predictors of sorafenib benefit in patients with hepatocellular carcinoma: Analysis of two phase III studies JO - J Hepatol VL - 67 UR - https://doi.org/10.1016/j.jhep.2017.06.026 DO - 10.1016/j.jhep.2017.06.026 ID - Bruix2017 ER - TY - JOUR AU - Luo, X. AU - Feng, G. S. PY - 2014 DA - 2014// TI - VEGFA genomic amplification tailors treatment of HCCs with sorafenib JO - Cancer Discov VL - 4 UR - https://doi.org/10.1158/2159-8290.CD-14-0406 DO - 10.1158/2159-8290.CD-14-0406 ID - Luo2014 ER - TY - JOUR AU - Ono, A. AU - Fujimoto, A. AU - Yamamoto, Y. AU - Akamatsu, S. AU - Hiraga, N. AU - Imamura, M. PY - 2015 DA - 2015// TI - Circulating tumor DNA analysis for liver cancers and its usefulness as a liquid biopsy JO - Cell Mol Gastroenterol Hepatol VL - 1 UR - https://doi.org/10.1016/j.jcmgh.2015.06.009 DO - 10.1016/j.jcmgh.2015.06.009 ID - Ono2015 ER - TY - JOUR AU - Tokuhisa, Y. AU - Iizuka, N. AU - Sakaida, I. AU - Moribe, T. AU - Fujita, N. AU - Miura, T. PY - 2007 DA - 2007// TI - Circulating cell-free DNA as a predictive marker for distant metastasis of hepatitis C virus-related hepatocellular carcinoma JO - Br J Cancer VL - 97 UR - https://doi.org/10.1038/sj.bjc.6604034 DO - 10.1038/sj.bjc.6604034 ID - Tokuhisa2007 ER - TY - JOUR AU - Eisenhauer, E. A. AU - Therasse, P. AU - Bogaerts, J. AU - Schwartz, L. H. AU - Sargent, D. AU - Ford, R. PY - 2009 DA - 2009// TI - New response evaluation criteria in solid tumours: revised RECIST guideline (version 1.1) JO - Eur J Cancer VL - 45 UR - https://doi.org/10.1016/j.ejca.2008.10.026 DO - 10.1016/j.ejca.2008.10.026 ID - Eisenhauer2009 ER - TY - STD TI - Li H. Aligning sequence reads, clone sequences and assembly contigs with BWA-MEM. arXiv Preprint. 2013; https://arxiv.org/abs/1303.3997v2. Accessed 26 May 2013. UR - https://arxiv.org/abs/1303.3997v2 ID - ref12 ER - TY - STD TI - Benjamini Y, Speed TP. Summarizing and correcting the GC content bias in high-throughput sequencing. Nucleic Acids Res. 2012. https://doi.org/10.1093/nar/gks001. ID - ref13 ER - TY - JOUR AU - Beroukhim, R. AU - Getz, G. AU - Nghiemphu, L. AU - Barretina, J. AU - Hsueh, T. AU - Linhart, D. PY - 2007 DA - 2007// TI - Assessing the significance of chromosomal aberrations in cancer: methodology and application to glioma JO - Proc Natl Acad Sci U S A VL - 104 UR - https://doi.org/10.1073/pnas.0710052104 DO - 10.1073/pnas.0710052104 ID - Beroukhim2007 ER - TY - JOUR PY - 2017 DA - 2017// TI - Comprehensive and integrative genomic characterization of hepatocellular carcinoma JO - Cell. VL - 41 ID - ref15 ER - TY - JOUR AU - Lee, J. S. AU - Chu, I. S. AU - Heo, J. AU - Calvisi, D. F. AU - Sun, Z. AU - Roskams, T. PY - 2004 DA - 2004// TI - Classification and prediction of survival in hepatocellular carcinoma by gene expression profiling JO - Hepatology. VL - 40 UR - https://doi.org/10.1002/hep.20375 DO - 10.1002/hep.20375 ID - Lee2004 ER - TY - JOUR AU - Chiang, D. Y. AU - Villanueva, A. AU - Hoshida, Y. AU - Peix, J. AU - Newell, P. AU - Minguez, B. PY - 2008 DA - 2008// TI - Focal gains of VEGFA and molecular classification of hepatocellular carcinoma JO - Cancer Res VL - 68 UR - https://doi.org/10.1158/0008-5472.CAN-08-0742 DO - 10.1158/0008-5472.CAN-08-0742 ID - Chiang2008 ER - TY - JOUR AU - Zucman-Rossi, J. AU - Villanueva, A. AU - Nault, J. C. AU - Llovet, J. M. PY - 2015 DA - 2015// TI - Genetic landscape and biomarkers of hepatocellular carcinoma JO - Gastroenterology VL - 149 UR - https://doi.org/10.1053/j.gastro.2015.05.061 DO - 10.1053/j.gastro.2015.05.061 ID - Zucman-Rossi2015 ER - TY - JOUR AU - Dawson, S. J. AU - Tsui, D. W. AU - Murtaza, M. AU - Biggs, H. AU - Rueda, O. M. AU - Chin, S. F. PY - 2013 DA - 2013// TI - Analysis of circulating tumor DNA to monitor metastatic breast cancer JO - N Engl J Med VL - 368 UR - https://doi.org/10.1056/NEJMoa1213261 DO - 10.1056/NEJMoa1213261 ID - Dawson2013 ER - TY - JOUR AU - Murtaza, M. AU - Dawson, S. J. AU - Tsui, D. W. AU - Gale, D. AU - Forshew, T. AU - Piskorz, A. M. PY - 2013 DA - 2013// TI - Non-invasive analysis of acquired resistance to cancer therapy by sequencing of plasma DNA JO - Nature. VL - 497 UR - https://doi.org/10.1038/nature12065 DO - 10.1038/nature12065 ID - Murtaza2013 ER - TY - JOUR AU - Bidard, F. C. AU - Madic, J. AU - Mariani, P. AU - Piperno-Neumann, S. AU - Rampanou, A. AU - Servois, V. PY - 2014 DA - 2014// TI - Detection rate and prognostic value of circulating tumor cells and circulating tumor DNA in metastatic uveal melanoma JO - Int J Cancer VL - 134 UR - https://doi.org/10.1002/ijc.28436 DO - 10.1002/ijc.28436 ID - Bidard2014 ER - TY - JOUR AU - Lee, J. H. AU - Long, G. V. AU - Boyd, S. AU - Lo, S. AU - Menzies, A. M. AU - Tembe, V. PY - 2017 DA - 2017// TI - Circulating tumour DNA predicts response to anti-PD1 antibodies in metastatic melanoma JO - Ann Oncol VL - 28 UR - https://doi.org/10.1093/annonc/mdx026 DO - 10.1093/annonc/mdx026 ID - Lee2017 ER - TY - JOUR AU - Nygaard, A. D. AU - Holdgaard, P. C. AU - Spindler, K. L. AU - Pallisgaard, N. AU - Jakobsen, A. PY - 2014 DA - 2014// TI - The correlation between cell-free DNA and tumour burden was estimated by PET/CT in patients with advanced NSCLC JO - Br J Cancer VL - 110 UR - https://doi.org/10.1038/bjc.2013.705 DO - 10.1038/bjc.2013.705 ID - Nygaard2014 ER - TY - JOUR AU - Steffensen, K. D. AU - Madsen, C. V. AU - Andersen, R. F. AU - Waldstrom, M. AU - Adimi, P. AU - Jakobsen, A. PY - 2014 DA - 2014// TI - Prognostic importance of cell-free DNA in chemotherapy resistant ovarian cancer treated with bevacizumab JO - Eur J Cancer VL - 50 UR - https://doi.org/10.1016/j.ejca.2014.06.022 DO - 10.1016/j.ejca.2014.06.022 ID - Steffensen2014 ER - TY - JOUR AU - Tabernero, J. AU - Lenz, H. J. AU - Siena, S. AU - Sobrero, A. AU - Falcone, A. AU - Ychou, M. PY - 2015 DA - 2015// TI - Analysis of circulating DNA and protein biomarkers to predict the clinical activity of regorafenib and assess prognosis in patients with metastatic colorectal cancer: a retrospective, exploratory analysis of the CORRECT trial JO - Lancet Oncol. VL - 16 UR - https://doi.org/10.1016/S1470-2045(15)00138-2 DO - 10.1016/S1470-2045(15)00138-2 ID - Tabernero2015 ER - TY - JOUR AU - Li, B. T. AU - Drilon, A. AU - Johnson, M. L. AU - Hsu, M. AU - Sima, C. S. AU - McGinn, C. PY - 2016 DA - 2016// TI - A prospective study of total plasma cell-free DNA as a predictive biomarker for response to systemic therapy in patients with advanced non-small-cell lung cancers JO - Ann Oncol VL - 27 UR - https://doi.org/10.1093/annonc/mdv498 DO - 10.1093/annonc/mdv498 ID - Li2016 ER - TY - JOUR AU - Beroukhim, R. AU - Mermel, C. H. AU - Porter, D. AU - Wei, G. AU - Raychaudhuri, S. AU - Donovan, J. PY - 2010 DA - 2010// TI - The landscape of somatic copy-number alteration across human cancers JO - Nature. VL - 463 UR - https://doi.org/10.1038/nature08822 DO - 10.1038/nature08822 ID - Beroukhim2010 ER - TY - JOUR AU - Kim, T. M. AU - Xi, R. AU - Luquette, L. J. AU - Park, R. W. AU - Johnson, M. D. AU - Park, P. J. PY - 2013 DA - 2013// TI - Functional genomic analysis of chromosomal aberrations in a compendium of 8000 cancer genomes JO - Genome Res VL - 23 UR - https://doi.org/10.1101/gr.140301.112 DO - 10.1101/gr.140301.112 ID - Kim2013 ER - TY - JOUR AU - Zack, T. I. AU - Schumacher, S. E. AU - Carter, S. L. AU - Cherniack, A. D. AU - Saksena, G. AU - Tabak, B. PY - 2013 DA - 2013// TI - Pan-cancer patterns of somatic copy number alteration JO - Nat Genet VL - 45 UR - https://doi.org/10.1038/ng.2760 DO - 10.1038/ng.2760 ID - Zack2013 ER - TY - JOUR AU - Wang, K. AU - Lim, H. Y. AU - Shi, S. AU - Lee, J. AU - Deng, S. AU - Xie, T. PY - 2013 DA - 2013// TI - Genomic landscape of copy number aberrations enables the identification of oncogenic drivers in hepatocellular carcinoma JO - Hepatology. VL - 58 UR - https://doi.org/10.1002/hep.26402 DO - 10.1002/hep.26402 ID - Wang2013 ER - TY - JOUR AU - Chen, C. F. AU - Hsu, E. C. AU - Lin, K. T. AU - Tu, P. H. AU - Chang, H. W. AU - Lin, C. H. PY - 2010 DA - 2010// TI - Overlapping high-resolution copy number alterations in cancer genomes identified putative cancer genes in hepatocellular carcinoma JO - Hepatology. VL - 52 UR - https://doi.org/10.1002/hep.23847 DO - 10.1002/hep.23847 ID - Chen2010 ER - TY - JOUR AU - Pinto, A. E. AU - Pereira, T. AU - Santos, M. AU - Branco, M. AU - Dias, A. AU - Silva, G. L. PY - 2013 DA - 2013// TI - DNA ploidy is an independent predictor of survival in breast invasive ductal carcinoma: a long-term multivariate analysis of 393 patients JO - Ann Surg Oncol VL - 20 UR - https://doi.org/10.1245/s10434-012-2804-6 DO - 10.1245/s10434-012-2804-6 ID - Pinto2013 ER - TY - JOUR AU - Carter, S. L. AU - Eklund, A. C. AU - Kohane, I. S. AU - Harris, L. N. AU - Szallasi, Z. PY - 2006 DA - 2006// TI - A signature of chromosomal instability inferred from gene expression profiles predicts clinical outcome in multiple human cancers JO - Nat Genet VL - 38 UR - https://doi.org/10.1038/ng1861 DO - 10.1038/ng1861 ID - Carter2006 ER - TY - STD TI - Weiss GJ, Beck J, Braun DP, Bornemann-Kolatzki K, Barilla H, Cubello R, et al. Changes in tumor cell-free DNA copy number instability (CNI) predict therapeutic response in metastatic cancers. Cancer Res. 2016. https://doi.org/10.1158/1538-7445.AM2016-3138. ID - ref34 ER - TY - JOUR AU - Weiss, G. J. AU - Beck, J. AU - Braun, D. P. AU - Bornemann-Kolatzki, K. AU - Barilla, H. AU - Cubello, R. PY - 2017 DA - 2017// TI - Tumor cell-free DNA copy number instability predicts therapeutic response to immunotherapy JO - Clin Cancer Res VL - 23 UR - https://doi.org/10.1158/1078-0432.CCR-17-0231 DO - 10.1158/1078-0432.CCR-17-0231 ID - Weiss2017 ER - TY - JOUR AU - Carter, L. AU - Rothwell, D. G. AU - Mesquita, B. AU - Smowton, C. AU - Leong, H. S. AU - Fernandez-Gutierrez, F. PY - 2017 DA - 2017// TI - Molecular analysis of circulating tumor cells identifies distinct copy-number profiles in patients with chemosensitive and chemorefractory small-cell lung cancer JO - Nat Med VL - 23 UR - https://doi.org/10.1038/nm.4239 DO - 10.1038/nm.4239 ID - Carter2017 ER - TY - JOUR AU - Leary, R. J. AU - Sausen, M. AU - Kinde, I. AU - Papadopoulos, N. AU - Carpten, J. D. AU - Craig, D. PY - 2012 DA - 2012// TI - Detection of chromosomal alterations in the circulation of cancer patients with whole-genome sequencing JO - Sci Transl Med VL - 4 UR - https://doi.org/10.1126/scitranslmed.3004742 DO - 10.1126/scitranslmed.3004742 ID - Leary2012 ER - TY - JOUR AU - Heitzer, E. AU - Ulz, P. AU - Belic, J. AU - Gutschi, S. AU - Quehenberger, F. AU - Fischereder, K. PY - 2013 DA - 2013// TI - Tumor-associated copy number changes in the circulation of patients with prostate cancer identified through whole-genome sequencing JO - Genome Med VL - 5 UR - https://doi.org/10.1186/gm434 DO - 10.1186/gm434 ID - Heitzer2013 ER -