Survival prediction for patients with lung adenocarcinoma: A prognostic risk model based on gene mutations

Article type: Research Article

Authors: Geng, Hua^a | Li, Shixiong^a | Guo, Yixian^b | Yan, Fang^b | Han, Yuebin^b | Xu, Meilin^{a; *} | Cui, Yanzhi^{c; *}

Affiliations: [a] Department of Pathology, Tianjin Chest Hospital, Tianjin, China | [b] Tianjin Marvel Medical Laboratory, Tianjin Marvelbio Technology Co., Ltd, Tianjin, China | [c] Department of Medical Oncology, Fourth Hospital of Hebei Medical University, Shijiazhuang, Hebei, China

Correspondence: [*] Corresponding authors: Meilin Xu, Department of Pathology, Tianjin Chest Hospital, No. 261 Taierzhuang South Road, Tianjin 300222, China. Tel.: +86 22 88185231; Fax: +86 22 88185231; E-mail: [email protected]; Yanzhi Cui, Department of Medical Oncology, Fourth Hospital of Hebei Medical University, No. 12 Jiankang Road, Shijiazhuang, Hebei 050011, China. Tel.: +86 15932149732; Fax: +86 311 66696305; E-mail: [email protected].

Abstract: BACKGROUND: Lung adenocarcinoma is the most common type of lung cancer, and it is one of the most aggressive and rapidly fatal tumor types. OBJECTIVE: To identify a signature mutation genes for prognostic prediction of lung adenocarcinoma. METHODS: Four hundred and sixty-two lung adenocarcinoma cases were screened out and downloaded from TCGA database. Mutation data of 18 targeted genes were detected by MuTect. LASSO-COX model was used to screen gene loci, and then a prognosis model was established. Afterwards, 40 clinical patients of lung adenocarcinoma were collected to verify the mutation features and the predictive function of the above prognostic model. The mutations of above 18 genes were sequenced with targeted next generation sequencing (NGS) and analyzed with GATK and MuTect. RESULTS:TP53 (282, 32.38%), NF1 (82, 9.41%) and EGFR (80, 9.18%) were the top 3 most frequent mutation genes. A total of 7 variables were screened out after lasso-COX analysis (tumor stage, age, diagnostic type, SMARCA4, GNAS, PTCH2, TSC2). SMARCA4, GNAS and TSC2 were a gene mutation signature to predict a poor prognosis. CONCLUSIONS: We established a prognostic model for lung adenocarcinoma, and further concluded that SMARCA4, GNAS and TSC2 were a gene signature which plays a prognostic role.

Keywords: Lung adenocarcinoma, gene mutation signature, prognosis, a risk model

DOI: 10.3233/CBM-191204

Journal: Cancer Biomarkers, vol. 27, no. 4, pp. 525-532, 2020