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  • Hoon Kim#*, Soyeon Kim*, Taylor Wade, Eunchae Yeo, […], Sepil An, Junyong Ko, Yoonjoo Nam, Hwa Yeon Lee, Seunghyun Kang, Heesuk Chung, […], Roel G. W. Verhaak#, “Mapping extrachromosomal DNA amplifications during cancer progression”, Nature Genetics, 2024 November.

  • Jens Luebeck,Edwin Huang, […],Soyeon Kim, Hoon Kim, […], Jill Mesirov, Vineet Bafna. “AmpliconSuite: and end-to-end workflow for analyzing focal amplifications in cancer genomes”, Biorxiv, 2024 May.

  • Jens Luebeck, Alvin Wei Tian Ng, […],Hoon Kim, […], Howard Y. Chang, Paul S. Mischel. “Extrachromosomal DNA in the cancerous transformation of Barrett’s esophagus”, Nature, 2023 April.

  • Frederick S Varn, Kevin C Johnson, […],Hoon Kim, […], Roel GW Verhaak,The GLASS Consortium. “Glioma progression is shaped by genetic evolution and microenvironment interactions”, Cell, 2022 June.

  • Yi E, Gujar A, Guthrie M, Hoon Kim, Johnson K, Amin S, Das S, Clow P, Cheng A, Verhaak RG. “Live-cell imaging shows uneven segregation of extrachromosomal DNA elements and transcriptionally active extrachromosomal DNA clusters in cancer.”, Cancer Discovery, 2022 Feb.

  • Kevin C. Johnson*, Kevin J. Anderson, […] , Hoon Kim, […], Paul Robson, Roel G. W. Verhaak “Single-cell multimodal glioma analyses identify epigenetic regulators of cellular plasticity and environmental stress response”, Nature Genetics, 2021 September.

  • Yanfen Zhu*, Amit D. Gujar, Chee-Hong Wong, […], Hoon Kim, […], Roel G.W. Verhaak, Chia-Lin Wei. “Oncogenic Extrachromosomal DNA Functions as Mobile Enhancers to Globally Amplify Chromosomal Transcription.”, Cancer Cell, 2021 April.

  • Hoon Kim, Nam Nguyen, Kristen Turner, […], Sihan Wu, Jihe Liu, Sandeep Namburi, Howard Chang, Paul Mischel, Vineet Bafna, Roel Verhaak. “Extrachromosomal DNA is associated with oncogene amplification and poor outcome across multiple cancers.”, Nature Genetics, 2020 Aug.

  • Oldrini Barbara, Nuria Vaquero-Siguero, Quanhua Mu, […], Hoon Kim, […],Tao Jiang,Jiguang Wang and Massimo Squatrito. “MGMT genomic rearrangements contribute to chemotherapy resice in gliomas.”, Nature Communications, 2020 Aug.

  • Samir Amin, Kevin J Anderson, C Elizabeth Boudreau, Emmanuel Martinez-Ledesma, […], Hoon Kim, […], Roel G.W. Verhaak. “Comparative molecular life history of spontaneous canine and human glioma”, Cancer Cell, 2020 Feb.

  • Floris P. Barthel, Kevin C. Johnson, The Glioma Longitudinal Analysis Consortium. “Longi-tudinal Molecular Trajectories of Diffuse Glioma in Adults”, Nature, 2019 Nov.

  • Kristen M. Turner, Sihan Wu, […], Hoon Kim, Julie Law, Roel Verhaak, Frank Furnari, Howard Chang, Bing Ren, Vineet Bafna, Paul Mischel. “Circular extrachromosomal DNA promotes accessible chromatin and high oncogene expression.”, Nature, 2019 Nov.

  • Ana deCarvalho, Hoon Kim (co-1st author), Laila M. Poison, […], Lynda Chin, Tom Mikkelsen, Roel G.W. Verhaak. “Discordant inheritance of chromosomal and extrachromosomal DNA elements contributes to dynamic disease evolution in glioblastoma.” , Nature Genetics, 2018 Apr.

  • The Glioma Longitudinal Analysis Consortium. “Glioma Through the Looking GLASS: the Glioma Longitudinal Analysis consortium, molecular evolution of diffuse gliomas”, Neuro Oncology, 2018 Jun.

  • Javier Figueroa, Lynette Phillips, Tal Shahar, Anwar Hossain, Joy Gumin, Hoon Kim, Andrew Bean, George Calin, Juan Fueyo, Edgar Walters, Raghu Kalluri, Roel Verhaak, Frederick Lang. “Exosomes from Glioma-Associated Mesenchymal Stem Cells Increase the Tumorigenicity of Glioma Stem-like Cells via Transfer of Specific microRNA.”, Cancer Research, 2017 Nov.

  • Wang Q, Hu B, Hu X, Hoon Kim, Nam DH, Verhaak RG. “Tumor evolution of glioma intrinsic gene expression subtype associates with immunological changes in the microenvironment.”, Cancer Cell, 2017 Jul.

  • Hu X, Martinez-Ledesma E, Zheng S, Hoon Kim, Barthel F, Jiang T, Hess KR, Verhaak RG. “Multigene signature for predicting prognosis of patients with 1p19q co-deletion diffuse glioma.”, Neuro Oncology, 2017 Jun.

  • Zheng S, Cherniack AD, Cancer Genome Atlas Research Network, Verhaak RG. “Comprehensive Pan-Genomic Characterization of Adrenocortical Carcinoma.”,Cancer Cell, 2016 May.

  • Cancer Genome Atlas Research Network. “Comprehensive, Integrative Genomic Analysis of Diffuse Lower Grade Gliomas.”, New England Journal of Medicine, 2015 Jun.

  • Hoon Kim, Verhaak RG. “Transcriptional mimicry by tumor-associated stroma.”, Nature Genetics, 2015 Apr.

  • Hoon Kim, Zheng S, Amini SS, Mikkelsen T, Meyerson M, Chin L, Barnholtz-Sloan JS, Verhaak RG. “Whole-genome and multisector exome sequencing of primary and post-treatment glioblastoma reveals patterns of tumor evolution.”, Genome Research, 2015 Mar.

  • Yoshihara K, Wang Q, Torres-Garcia W, Zheng S, Vegesna R, Hoon Kim, Verhaak RG. “The landscape and therapeutic relevance of cancer-associated transcript fusions.” ,Oncogene, 2015 Sep.

  • Cancer Genome Atlas Research Network. “Multiplatform analysis of 12 cancer types reveals molecular classification within and across tissues of origin.”,Cell, 2014 Aug.

  • Martínez E, Yoshihara K, Hoon Kim, Mills GM, Treviño V, Verhaak RG. “Comparison of gene expression patterns across 12 tumor types identifies a cancer supercluster characterized by TP53 mutations and cell cycle defects.”, Oncogene, 2014 Aug.

  • Zheng S, Hoon Kim, Verhaak RG. “Silent mutations make some noise.”, Cell, 2014 Mar.

  • Cancer Genome Atlas Research Network. “The Cancer Genome Atlas Pan-Cancer analysis project.”Nature Genetics, 2013 Oct.

  • Cancer Genome Atlas Research Network. “Comprehensive molecular characterization of clear cell renal cell carcinoma.” Nature, 2013 Jul.

  • Yoshihara K, Shahmoradgoli M, Martínez E, Vegesna R, Hoon Kim, Verhaak RG. “Inferring tumour purity and stromal and immune cell admixture from expression data.” Nat Commun., 2013.

  • Cheng WY, Hoon Kim, Kandel J, Anastassiou D. “Cancer invasion associated gene expression signature is present in differentially expressed genes in the reprogramming of fibroblasts into stem cells.” 2011. Available from Nature Precedings

  • Hoon Kim, Watkinson J, Anastassiou D. “Biomarker discovery using statistically significant gene sets.” J Comput Biol. , 2011 Oct.

  • Hoon Kim, Watkinson J, Varadan V, Anastassiou D. “Multi-cancer computational analysis reveals invasion-associated variant of desmoplastic reaction involving INHBA, THBS2 and COL11A1.” BMC Med Genomics, 2010 Nov.