Combining omics data to identify genes associated with allergic rhinitis.
Combining omics data to identify genes associated with allergic rhinitis.
复制标题
组合法量数据以识别与过敏性鼻炎相关的基因。
DOI：
10.1186/s13148-017-0310-1
复制
发表时间：
2017
影响因子：
5.7
通讯作者：
Laprise C
中科院分区：
文献类型：
--
作者：
Morin A;Laviolette M;Pastinen T;Boulet LP;Laprise C
过敏性鼻炎是一种常见的慢性疾病，其特征是免疫球蛋白E介导的炎症。为了识别与该性状相关的新基因，我们进行了全基因组和表观基因组关联研究，并通过识别顺式甲基化数量性状位点 (mQTL)，将位于基因或其启动子中的略微显着的 CpG 与距离 CpG 1 Mb 的 SNP 连接起来。这种方法依赖于功能性细胞方面而不是严格的统计校正。我们能够鉴定出一种对于过敏性鼻炎具有显着顺式 mQTL 的基因，即尾部型同源盒 1 (CDX1)。我们还鉴定了 11 个具有轻微显着顺式 mQTL 的基因 (p<0.05)，其中包括一个同时患有过敏性鼻炎和哮喘的基因 (RNF39)。此外，大多数识别出的 SNP 并不是最接近它们通过 cis-mQTL 关联的基因，计算了与 CDX1 关联的基因，该 CDX1 位于先前与哮喘和特应性皮炎相关的基因中。通过结合组学数据，我们能够识别与过敏性鼻炎相关的新基因，并更好地评估与相关 SNP 相关的基因。
Allergic rhinitis is a common chronic disorder characterized by immunoglobulin E-mediated inflammation. To identify new genes associated with this trait, we performed genome- and epigenome-wide association studies and linked marginally significant CpGs located in genes or its promoter and SNPs located 1 Mb from the CpGs, by identifying cis methylation quantitative trait loci (mQTL). This approach relies on functional cellular aspects rather than stringent statistical correction. We were able to identify one gene with significant cis-mQTL for allergic rhinitis, caudal-type homeobox 1 (CDX1). We also identified 11 genes with marginally significant cis-mQTLs (p < 0.05) including one with both allergic rhinitis with or without asthma (RNF39). Moreover, most SNPs identified were not located closest to the gene they were linked to through cis-mQTLs counting the one linked to CDX1 located in a gene previously associated with asthma and atopic dermatitis. By combining omics data, we were able to identify new genes associated with allergic rhinitis and better assess the genes linked to associated SNPs.