Genomic Drivers of Cancer Pathogenesis

• 1975 · PDF Genomic drivers of plasticity in transformed small cell lung cancer Swanand Rakhade, Mamie Wang, Lena Morrill Gavarró, Emmanuel Spanos, Alvaro Quintanal-Villalonga, Amin Sabet, Parvathy Manoj, Rishika Giri, Ronan Chaligné, Xinjun Wang, Helena A. Yu, Esther Redin, Dana Pe'er, Charles M. Rudin, Joseph Chan
• 1976 · PDF Pathogenic germline KEAP1 variants drive constitutive NRF2 hyperactivation and enhanced oncogenic fitness in non small cell lung cancer Laura Eibler, Miika M. Mehine, Rebecca Caeser, Esther Redin, Michael F. Berger, Chaitanya Bandlamudi, Charles M. Rudin
• 1977 · PDF Whole-genome sequencing of >8,000 TCGA samples reveals diverse and atypical spectra of homologous recombination deficiency in primary human cancers Joonoh Lim, Chunyang Bao, Hansol Park, Gang-Hee Lee, Ryul Kim, Won-Chul Lee, Jonghoon Lee, Yoonsuh Lee, Beomki Lee, David Lehotzky, Ron Solan, Antonia Kowalewski, Xavi Loinaz, Vasuki Narasimha Swamy, David I. Heiman, Samantha Van Seters, Saveliy Belkin, Sam Wiseman, Andrew D. Cherniack, Luis Antonio Corchete Sanchez, Brian P. Danysh, Zachary Everton, Chip Stewart, Haruna Tomono, Gengchao Wang, Esther Rheinbay, Gad Getz, Young Seok Ju
• 1978 · PDF Copy number analysis of regulatory regions reveal recurrent promoter/enhancer somatic copy number alterations across >8,000 TCGA samples Haruna Tomono, Chunyang Bao, Antonia Kowalewski, David Lehotzky, Ron Solan, Matthew Leventhal, Luis Antonio Corchete Sanchez, David I. Heiman, Samantha Van Seters, Saveliy Belkin, Sam Wiseman, Brian P. Danysh, Chip Stewart, Vasuki Narasimha Swamy, Gengchao Wang, Xavi Loinaz, Zachary Everton, Gang-Hee Lee, Won-Chul Lee, Hansol Park, Ryul Kim, Young Seok Ju, Esther Rheinbay, Gad Getz, Andrew D. Cherniack, Matthew L. Meyerson, Rameen Beroukhim
• 1979 · PDF Genomic profiling of 1,104 consecutive, prospective meningiomas defines the population prevalence of molecular alterations and elucidates potential biomarkers of treatment response Minh P. Nguyen, Kanish Mirchia, Brooke C. Braman, Ramin A. Morshed, Nancy Ann Oberheim Bush, Javier E. Villanueva-Meyer, William C. Chen, Walter Patrick Devine, Arie Perry, David R. Raleigh
• 1980 · PDF Pan-cancer LINE-1 retrotransposition landscapes in TCGA whole-genome sequences Beomki Lee, Ryul Kim, Chunyang Bao, Hansol Park, Gang-Hee Lee, Jonghoon Lee, Yoonsuh Lee, Won-Chul Lee, David Lehotzky, Ron Solan, Antonia Kowalewski, Xavi Loinaz, Vasuki Narasimha Swamy, David I. Heiman, Samantha Van Seters, Saveliy Belkin, Sam Wiseman, Andrew D. Cherniack, Luis Antonio Corchete Sanchez, Brian P. Danysh, Zachary Everton, Chip Stewart, Haruna Tomono, Gengchao Wang, Esther Rheinbay, Gad Getz, Cheng-Zhong Zhang, Young Seok Ju
• 1981 · PDF Absence of somatic copy number alterations in non-neoplastic prostate epithelium Ajay Vaghasia, Levent Trabzonlu, Anuj Gupta, Ibrahim Kulac, Busra Ozbek, Jiayu Chen, Qizhi Zheng, Jessica L. Hicks, Tracy Jones, Roy Elias, Alyza Skaist, Jennifer Meyers, Kornel Schuebel, Christopher M. Heaphy, Alan K. Meeker, William G. Nelson, Angelo Michael De Marzo, Srinivasan Yegnasubramanian
• 1982 · PDF Genomic analyses of patient-derived xenografts reveal novel molecular subsets of PDAC and their association with clinical features Chani Stossel, Rotem Tal, Rouven Hoefflin, Maria Raitses-Gurevich, Dikla Atias, Yulia Glick Gorman, Gali Altman, Tamar Beller, Talia Golan, Itay Tirosh
• 1985 Optimizing precision oncology: A large scale clinico-genomic analysis of WES versus targeted panels in 37,898 patients Jing Hu, Minghui Wang, Junqiang Yin, Aibo Xia, Zanmei Xu, Shaohua Yuan, Yannan Zhu, Kunxu Xu, Yimin Guan, Haiyin Huang, Kai Wang
• 1986 · PDF The pan-cancer landscape of chromosome Y alterations Luis Antonio Corchete Sanchez, Chunyang Bao, Saveliy Belkin, Andrew D. Cherniack, Brian P. Danysh, Zachary Everton, David I. Heiman, Ryul Kim, Antonia Kowalewski, Gang-Hee Lee, Won-Chul Lee, David Lehotzky, Xavi Loinaz, Vasuki Narasimha Swamy, Hansol Park, Ron Solan, Chip Stewart, Haruna Tomono, Samantha Van Seters, Gengchao Wang, Sam Wiseman, Young Seok Ju, Gad Getz, Esther Rheinbay
• 1988 · PDF Human and viral whole genome sequencing identify HPV and APOBEC as oncogenic drivers in sinonasal squamous cell carcinoma Harrison B. Chong, Michael E. Bryan, Maoxuan Lin, Magdy Gohar, William C. Faquin, Lisa J. Mirabello, James S. Lewis, Michael S. Lawrence, Daniel Faden
• 1989 · PDF Systematic discovery and classification of structural variant drivers across >8,000 TCGA whole genomes Antonia Kowalewski, Xavi Loinaz, Hansol Park, Vasuki Narasimha Swamy, David Heiman, Samantha Van Seters, Saveliy Belkin, Sam Wiseman, Chunyang Bao, Andrew D. Cherniack, Luis A. Corchete Sanchez, Brian P. Danysh, Zachary Everton, Ryul Kim, Gang-Hee Lee, Won-Chul Lee, David Lehotzky, Ron Solan, Chip Stewart, Haruna Tomono, Gengchao Wang, Rameen Beroukhim, Young Seok Ju, Esther Rheinbay, Gad Getz
• 1990 · PDF Pan-cancer PCR-free whole-genome sequencing refines the somatic driver landscape beyond exome sequencing alone Gengchao Wang, David I Heiman, Vasuki Narasimha Swamy, Chip Stewart, Xavi Loinaz, Ron Solan, Chunyang Bao, David Lehotzky, Brian P Danysh, Luis Antonio Corchete Sanchez, Zachary Everton, Sam Wiseman, Antonia Kowalewski, Samantha Van Seters, Saveliy Belkin, Haruna Tomono, Andrew D Cherniack, Ryul Kim, Gang-Hee Lee, Won-Chul Lee, Hansol Park, Rebecca Jang, Young Seok Ju, Gad Getz, Esther Rheinbay
• 1991 · PDF Germline predisposition in The Cancer Genome Atlas (TCGA) whole-genome sequencing datasets Ryul Kim, Owen Hirschi, Matthew Leventhal, Chunyang Bao, Hansol Park, Gang-Hee Lee, Won-Chul Lee, Jonghoon Lee, Yoonsuh Lee, Beomki Lee, David Lehotzky, Ron Solan, Antonia Kowalewski, Xavi Loinaz, Vasuki Narasimha Swamy, David I. Heiman, Samantha Van Seters, Saveliy Belkin, Sam Wiseman, Andrew D. Cherniack, Luis Antonio Corchete Sanchez, Brian P Danysh, Zachary Everton, Chip Stewart, Haruna Tomono, Gengchao Wang, Esther Rheinbay, Gad Getz, Cheng-Zhong Zhang, Matthew L. Meyerson, Young Seok Ju
• 1992 · PDF Delineating genomic instability dynamics in breast cancer by bulk and single-cell whole genome sequencing Konstantinos L. Georgiadis, Sen Li, Thomas Hatschek, Theodoros Foukakis, Nicola Crosetto
• 1993 · PDF Real-world landscape of KMT2A and NPM1 variants and fusions in hematologic malignancies (2020-2025) Roisin Puentes, Madhuri Paul, Ryan Bender, Amber Chevalier, Nathan Montgomery
• 1994 · PDF Integrative multi-omic analysis reveals subtype-specific impact of extrachromosomal DNA in melanoma Sharadha Sakthikumar, Bryce Turner, Jeffrey Trent, ALEKSANDAR SEKULIC
• 1995 · PDF Clinicogenomic landscape of IPMN-derived pancreatic cancer Peter Y. Yu, Joseph R. Habib, Jonah Levine, Brock Hewitt, Michael D. Kluger, Katherine A. Morgan, Anirban Maitra, Christopher Wolfgang, Ammar A. Javed, Greg Sacks
• 1996 · PDF Base editing for systematic reclassification of variants of unknown significance in NF1 Sara Galavotti, Elena Endrizzi, Emanuele Bonetti, Gabriele Picco, Gianmaria Frige, Pier Giuseppe Pelicci, Luca Mazzarella
• 1997 · PDF Integrative single-nuclei spatial transcriptomic profiling of primary and recurrent human glioblastoma reveals cell-specific EGFRvIII expression and ANXA1 signaling axis Simon G. Gregory, Lauren Whaley-Powers, Vaibhav Jain, Michael Aksu, Emily Hocke, Alan Smith, Stephanie Arvai, Ellora Haukefrers, Kevin Stevenson, Khooshbu Patel, Diane Satterfield, Elizabeth Thomas, Karen Abramson, Giselle Y. Lopez, Roger E. McLendon, David M. Ashley
• 1998 · PDF Minerva: High-Resolution Allele-Specific Copy Number and Complex SV Harmonization with Long Reads Ayse G. Keskus, Tanveer Ahmad, Isabel Rodriguez, Anton Goretsky, Ataberk Donmez, Sonam Tulsyan, Nicholas Syracuse, Michael Dean, Mikhail Kolmogorov
• 1999 · PDF Founder Wnt alterations guide the evolutionary trajectories of colorectal tumorigenesis Yoshikage Inoue, Nobuyuki Kakiuchi, Satoshi Nagayama, Yutaro Kuwashima, Sekine Shigeki, Kenichi Yoshida, Koichi Watanabe, Satoshi N. Omura, Kazutaka Obama, Toshiro Sato, Seishi Ogawa
• 2000 · PDF A spontaneous CTNNB1 driver mutation reversion in a primary ovarian clear cell carcinoma Rania Bassiouni, Yuxin Jin, Lee D. Gibbs, Jing Qian, Solomon O. Rotimi, Heather Miller, Michelle G. Webb, David W. Craig, Javier Arias-Stella, Lynda Roman, John D. Carpten
• 2001 · PDF Discovery of coding and non-coding driver mutations across >8,000 TCGA whole genomes David Lehotzky, Ron Solan, Antonia Kowalewski, Nick Haradhvala, Xavier Loinaz, Hansol Park, Vasuki N. Swamy, David Heiman, Samantha Van Seters, Saveliy Belkin, Sam Wiseman, Chunyang Bao, Andrew Cherniack, Luis A. Corchete Sanchez, Brian P. Danysh, Zachary Everton, Ryul Kim, Gang-Hee Lee, Won-Chul Lee, Chip Stewart, Haruna Tomono, Gengchao Wang, Young Seok Ju, Esther Rheinbay, Gad Getz
• 2002 · PDF The landscape of X chromosome copy number alterations in cancer Matthew Joseph Leventhal, Chunyang Bao, Ron Solan, Haruna Tomono, Andrew D. Cherniack, Luis A. Corchete Sanchez, Rebecca Jang, Jeehee Suh, Antonia Kowalewski, Sam Wiseman, Samantha Van Seters, Saveliy Belkin, David I. Heiman, Chip Stewart, David Lehotzky, Vasuki N. Swamy, Brian P. Danysh, Gengchao Wang, Xavi Loinaz, Zachary Everton, Gang-Hee Lee, Won-Chul Lee, Hansol Park, Ryul Kim, Young Seok Ju, Esther Rheinbay, Gad Getz, Cheng-Zhong Zhang
• 2003 · PDF Comprehensive genomic profiling of angiosarcoma cells reveals widespread activation of the RAS pathway Donghee Lee, Sun Hee Choi, Md Abdullah, Eslenur Nipa, Jong Hyuk Kim
• 2004 · PDF Interrogating the genomic co-evolution of the immune system and cancer along the time and treatment continuum John Roy Lozada, Christine Luo, Devin Schmeck, Jeffrey S. Miller, Akash Patnaik, Emmanuel S. Antonarakis, Frank Cichocki, Justin Hwang

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