eQTL:expression quantitative trait loci, 表达定量性状基因位点,指控制特定基因表达的的一段DNA。 Cis-eQTL:又称local-eQTL,指距离调控的基因非常近eQTL,小于1Mb(更宽松的可用5Mb)。比如,该基因的promoter段的SNP。 Trans-eQTL:又称distal/ indirect-eQTL,距离调控的基因非常远的eQTL,大于5Mb以上,甚至不在同一条染...
cis和trans本质上就是通过SNP位点和gene之间的距离进行区分,首先对所有的SNP-gene对进行计算,然后根据距离阈值将结果进行拆分,小于阈值的SNP-gene对归于cis-eQTL, 大于阈值的归于trans-eQTL。
Võsa, U., Claringbould, A., Westra, HJ.et al.Large-scalecis- andtrans-eQTL analyses identify thousands of genetic loci and polygenic scores that regulate blood gene expression.Nat Genet53, 1300–1310 (2021). https://doi.org/10.1038/s41588-021-00913-z ...
Expression Quantitative Trait Loci - an overview | ScienceDirect Topics 我检索了一下表达数量性状位点 1. 在Systems Medicine书中写到是TSS前后1Mb左右 Conventionally variants within a short distance (about 1 Mb) on either side of a gene׳s transcription starting site (TSS) are called cis eQTLs, ...
Due to the computation burden, existing TWAS methods neglect distant trans- expression quantitative trait loci (eQTL) that are known to explain a significant proportion of the variation for most expression quantitative traits. To leverage both cis- and trans- eQTL information for TWAS, we propose ...
However, it is known that enhancers can interact with multiple genes, and it is also plausible that risk-associated SNPs regulate genes many megabases away, or even on a different chromosome (that is, trans-eQTL associations). Also, this study was based on eQTL analysis in tumour tissues. ...
Siriluck, PonsuksiliPuntita, SiengdeeYang, DuNares, TrakooljulEduard, MuraniManfred, SchwerinKlaus, Wimmers
cis和trans本质上就是通过SNP位点和gene之间的距离进行区分,首先对所有的SNP-gene对进行计算,然后根据距离阈值将结果进行拆分,小于阈值的SNP-gene对归于cis-eQTL, 大于阈值的归于trans-eQTL。 ·end· —如果喜欢,快分享给你的朋友们吧—
Matrix是一款经典的eQTL分析软件,可以支持cis和trans-eQTL的分析,官网如下 http://www.bios.unc.edu/research/genomic_software/Matrix_eQTL/ 其运行速度快,官方给出的和其他工具的运行速度比较结果如下 支持线性回归和ANOVA等模型,同时支持协变量的矫正。该软件有对应的R包,使用简便,基本用法如下 ...
Number of cis- and trans-eQTL in different eQTL classes.Marit, AckermannWeronika, SikoraWohlfeldAndreas, Beyer