SNPxGE2

The SNPxGE2 database contains the computationally predicted human SNP-coexpression associations, that is, the differential co-expression between 2 genes is associated with the genotype of an SNP. This data was generated from a large scale association study that was based on the HapMap data, which covered 269 individuals from 4 human populations, 556,873 SNPs and 15,000 gene expression profiles. In order to reduce the computational cost, the SNP-coexpression associations were assessed using gap/substitution scores instead of logistic regression models. The implementation was carried out using 128 Linux cluster nodes in ~30 days and assessed a total of ~1013 SNP-expression-expression combinations. The database can be queried via either gene symbols or reference SNP IDs. For each association, a detailed information page is provided.

SNPxGE2数据库收录了经计算预测得到的人类单核苷酸多态性（Single Nucleotide Polymorphism, SNP）-共表达关联关系，即两个基因间的差异共表达与某一SNP的基因型相关联。该数据集源自一项基于人类基因组单体型图（HapMap）数据的大规模关联研究，研究覆盖了来自4个人类族群的269名个体、556873个SNP位点以及15000个基因表达谱。为降低计算成本，研究采用间隙/替换得分（gap/substitution scores）而非逻辑回归模型来评估SNP-共表达关联关系。本次计算通过128个Linux集群节点耗时约30天完成，总计评估了约10^13个SNP-表达-表达组合。用户可通过基因符号或参考SNP ID检索该数据库，且针对每一条关联关系均提供了详细的信息页面。