Journal
NUCLEIC ACIDS RESEARCH
Volume 49, Issue 1, Pages 90-97Publisher
OXFORD UNIV PRESS
DOI: 10.1093/nar/gkaa1190
Keywords
-
Categories
Funding
- National Natural Science Foundation of China [81822039]
- Priority Academic Program Development of Jiangsu Higher Education Institutions (Public Health and Preventive Medicine)
Ask authors/readers for more resources
The study identified a large number of SNP-piRNA pairs through eQTL analysis and established a user-friendly database. This is important for the research community to understand the roles of genetic variants and piRNAs in cancer development.
PIWI-interacting RNAs (piRNAs) are an emerging class of non-coding RNAs involved in tumorigenesis. Expression quantitative trait locus (eQTL) analysis has been demonstrated to help reveal the genetic mechanism of single nucleotide polymorphisms (SNPs) in cancer etiology. However, there are no databases that have been constructed to provide an eQTL analysis between SNPs and piRNA expression. In this study, we collected genotyping and piRNA expression data for 10 997 samples across 33 cancer types from The Cancer Genome Atlas (TCGA). Using linear regression cis-eQTL analysis with adjustment of appropriate covariates, we identified millions of SNP-piRNA pairs in tumor (76 924 831) and normal (24 431 061) tissues. Further, we performed differential expression and survival analyses, and linked the eQTLs to genome-wide association study (GWAS) data to comprehensively decipher the functional roles of identified cis-piRNA eQTLs. Finally, we developed a user-friendly database, piRNA-eQTL (http://njmu-edu.cn:3838/piRNA-eQTL/), to help users query, browse and download corresponding eQTL results. In summary, piRNA-eQTL could serve as an important resource to assist the research community in understanding the roles of genetic variants and piRNAs in the development of cancers.
Authors
I am an author on this paper
Click your name to claim this paper and add it to your profile.
Reviews
Recommended
No Data Available