Genomic and immune profiling of pre-invasive lung adenocarcinoma

Haiquan Chen (), Jian Carrot-Zhang (), Yue Zhao, Haichuan Hu, Samuel S. Freeman, Su Yu, Gavin Ha, Alison M. Taylor, Ashton C. Berger, Lindsay Westlake, Yuanting Zheng, Jiyang Zhang, Aruna Ramachandran, Qiang Zheng, Yunjian Pan, Difan Zheng, Shanbo Zheng, Chao Cheng, Muyu Kuang, Xiaoyan Zhou, Yang Zhang, Hang Li, Ting Ye, Yuan Ma, Zhendong Gao, Xiaoting Tao, Han Han, Jun Shang, Ying Yu, Ding Bao, Yechao Huang, Xiangnan Li, Yawei Zhang, Jiaqing Xiang, Yihua Sun, Yuan Li, Andrew D. Cherniack, Joshua D. Campbell, Leming Shi and Matthew Meyerson ()
Additional contact information
Haiquan Chen: Fudan University Shanghai Cancer Center
Jian Carrot-Zhang: Dana-Farber Cancer Institute
Yue Zhao: Fudan University Shanghai Cancer Center
Haichuan Hu: Fudan University Shanghai Cancer Center
Samuel S. Freeman: Dana-Farber Cancer Institute
Su Yu: Fudan University Shanghai Cancer Center
Gavin Ha: Fred Hutchinson Cancer Research Center
Alison M. Taylor: Dana-Farber Cancer Institute
Ashton C. Berger: Broad Institute of MIT and Harvard
Lindsay Westlake: Broad Institute of MIT and Harvard
Yuanting Zheng: Fudan University
Jiyang Zhang: Fudan University
Aruna Ramachandran: Dana-Farber Cancer Institute
Qiang Zheng: Fudan University
Yunjian Pan: Fudan University Shanghai Cancer Center
Difan Zheng: Fudan University Shanghai Cancer Center
Shanbo Zheng: Fudan University Shanghai Cancer Center
Chao Cheng: Fudan University Shanghai Cancer Center
Muyu Kuang: Fudan University Shanghai Cancer Center
Xiaoyan Zhou: Fudan University
Yang Zhang: Fudan University Shanghai Cancer Center
Hang Li: Fudan University Shanghai Cancer Center
Ting Ye: Fudan University Shanghai Cancer Center
Yuan Ma: Fudan University Shanghai Cancer Center
Zhendong Gao: Fudan University Shanghai Cancer Center
Xiaoting Tao: Fudan University Shanghai Cancer Center
Han Han: Fudan University Shanghai Cancer Center
Jun Shang: Fudan University
Ying Yu: Fudan University
Ding Bao: Fudan University
Yechao Huang: Fudan University
Xiangnan Li: Fudan University
Yawei Zhang: Fudan University Shanghai Cancer Center
Jiaqing Xiang: Fudan University Shanghai Cancer Center
Yihua Sun: Fudan University Shanghai Cancer Center
Yuan Li: Fudan University
Andrew D. Cherniack: Dana-Farber Cancer Institute
Joshua D. Campbell: Boston University
Leming Shi: Fudan University
Matthew Meyerson: Dana-Farber Cancer Institute

Nature Communications, 2019, vol. 10, issue 1, 1-6

Abstract: Abstract Adenocarcinoma in situ and minimally invasive adenocarcinoma are the pre-invasive forms of lung adenocarcinoma. The genomic and immune profiles of these lesions are poorly understood. Here we report exome and transcriptome sequencing of 98 lung adenocarcinoma precursor lesions and 99 invasive adenocarcinomas. We have identified EGFR, RBM10, BRAF, ERBB2, TP53, KRAS, MAP2K1 and MET as significantly mutated genes in the pre/minimally invasive group. Classes of genome alterations that increase in frequency during the progression to malignancy are revealed. These include mutations in TP53, arm-level copy number alterations, and HLA loss of heterozygosity. Immune infiltration is correlated with copy number alterations of chromosome arm 6p, suggesting a link between arm-level events and the tumor immune environment.

Date: 2019
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DOI: 10.1038/s41467-019-13460-3

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