Whole-exome sequencing and microRNA profiling predicted relapse risk of stage I lung adenocarcinomas

Despite the advance in precision therapy, about 20% of stage I non-small cell lung cancer patients suffer a relapse after surgical resection. To develop molecular signatures for relapse prediction of stage I lung adenocarcinoma (LUAD), we conduct comprehensive analyses of multiplatform molecular profiling from 113 treatment-naïve stage I Taiwanese LUAD patients. We identify 16 nonsynonymous non-sporadic point mutations (NSPOPMs) harbored at EGFR, KRAS, TP53, CTNNB1 and 6 other genes, and find that the Non-EGFR NSPOPMs were associated with early relapse in a dose-dependent manner via variant allele fraction (VAF). We define a score, maxVAF, to aggregate the VAFs of these NSPOPMs by the maximum value. MicroRNA expression analysis shows a strong correlation between miR-31 and maxVAF. Combining maxVAF with miR-31 led to a powerful risk prediction for surgically resected stage I patients (hazard ratio = 8.65, P = 0.001). Our study opens up more options for precision management of stage I LUAD patients.

Type: Other
Archiver: European Genome-Phenome Archive (EGA)

4 Datasets

Click on a Dataset ID in the table below to learn more, and to find out who to contact about access to these data

Dataset ID	Description	Technology	Samples
EGAD00001006187	This dataset contains BAM files for RNA-sequencing of stage I lung adenocarcinomas from Asian patients. In total, there are 107 patients and 107 tumor samples.	Illumina HiSeq 2500	107
EGAD00001006188	This dataset contains BAM files for whole exome-sequencing of stage I lung adenocarcinomas from Asian patients. In total, there are 113 patients and 262 samples, including 113 tumor samples, 113 adjacent normal samples and 36 buffy coat samples.	Illumina HiSeq 2500	262
EGAD00010001901	This dataset contains CEL files and rma normalized expression value for microarray of stage I lung adenocarcinomas from Asian patients. In total, there are 69 patients and 138 samples, including 69 tumor samples and 69 adjacent normal samples.	Affy miRNA 3.0 array	138
EGAD00010001902	This dataset contains PAIR files and processed somatic copy number alteration value for array CGH of stage I lung adenocarcinomas from Asian patients. In total, there are 111 patients and 222 samples, including 111 tumor samples and 111 adjacent normal samples.	NimbleGen HG18 CGH 385K	222