Dataset Information

Whole-genome sequencing reveals genomic signatures associated with the inflammatory microenvironments in Chinese NSCLC patients.

ABSTRACT: Chinese lung cancer patients have distinct epidemiologic and genomic features, highlighting the presence of specific etiologic mechanisms other than smoking. Here, we present a comprehensive genomic landscape of 149 non-small cell lung cancer (NSCLC) cases and identify 15 potential driver genes. We reveal that Chinese patients are specially characterized by not only highly clustered EGFR mutations but a mutational signature (MS3, 33.7%), that is associated with inflammatory tumor-infiltrating B lymphocytes (P?=?0.001). The EGFR mutation rate is significantly increased with the proportion of the MS3 signature (P?=?9.37?×?10-5). TCGA data confirm that the infiltrating B lymphocyte abundance is significantly higher in the EGFR-mutated patients (P?=?0.007). Additionally, MS3-high patients carry a higher contribution of distant chromosomal rearrangements >1?Mb (P?=?1.35?×?10-7), some of which result in fusions involving genes with important functions (i.e., ALK and RET). Thus, inflammatory infiltration may contribute to the accumulation of EGFR mutations, especially in never-smokers.

SUBMITTER: Wang C

PROVIDER: S-EPMC5967326 | biostudies-literature | 2018 May

REPOSITORIES: biostudies-literature

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Whole-genome sequencing reveals genomic signatures associated with the inflammatory microenvironments in Chinese NSCLC patients.

Wang Cheng C Yin Rong R Dai Juncheng J Gu Yayun Y Cui Shaohua S Ma Hongxia H Zhang Zhihong Z Huang Jiaqi J Qin Na N Jiang Tao T Geng Liguo L Zhu Meng M Pu Zhening Z Du Fangzhi F Wang Yuzhuo Y Yang Jianshui J Chen Liang L Wang Qianghu Q Jiang Yue Y Dong Lili L Yao Yihong Y Jin Guangfu G Hu Zhibin Z Jiang Liyan L Xu Lin L Shen Hongbing H

Nature communications 20180524 1

Chinese lung cancer patients have distinct epidemiologic and genomic features, highlighting the presence of specific etiologic mechanisms other than smoking. Here, we present a comprehensive genomic landscape of 149 non-small cell lung cancer (NSCLC) cases and identify 15 potential driver genes. We reveal that Chinese patients are specially characterized by not only highly clustered EGFR mutations but a mutational signature (MS3, 33.7%), that is associated with inflammatory tumor-infiltrating B ...[more]

PMID: 29799009

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Dataset Information

Whole-genome sequencing reveals genomic signatures associated with the inflammatory microenvironments in Chinese NSCLC patients.

Publications

Whole-genome sequencing reveals genomic signatures associated with the inflammatory microenvironments in Chinese NSCLC patients.

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