为了进一步比较QT-GWAS与mGWAS的定位结果,作者对比了702个特征离子在GT-GWAS和mGWAS的共同定位结果。其中,71个特征离子在QT-GWAS和mGWAS中都得到关联,关联结果的重叠系数仅为0.32,意味着mGWAS 检索到的基因中只有 32%与 QT-GWAS 检索到的基因重叠,表明QT-GWAS 能够检索到 mGWAS 未发现的新关联。 图3. QT-GWA...
As a proof of the validity of QT-GWAS, 23 and 15 of the retrieved associations identified in Arabidopsis thaliana by QT-GWAS and mGWAS, respectively, were supported by previous research. Furthermore, seven gene-metabolite associations retrieved by QT-GWAS were confirmed in this study through ...
We show how to use Qtlizer for annotating a coronary artery disease (CAD) GWAS locus at chromosome 3q22.3, whose index SNP is rs2306374 (Supplementary Fig.3)23. After specifying the input SNP and clicking the button “Annotate”, Qtlizer lists 31 QTL records (indicated as “#Results: 31...
The R tool associated with 3VmrMLM, a comprehensive GWAS method for identifying QTNs, QTN-by-environment interactions, and QTN-by-QTN interactions for quantitative traits. - YuanmingZhang65/IIIVmrMLM
In this study, the mrMLM was used to perform a GWAS based on Axiom Maize 55K SNP Array data from 132 maize inbred lines. QTNs associated with the KMC and KDR were detected using five methods in the package mrMLM (mrMLM, FASTmrMLM, FASTmrEMMA, pLARmEB, and ISIS EM-BLASSO). Associated...
GWAS 使用自动化的nextflow流程,我们在Singularity容器或 Anaconda 环境中运行一系列版本的生物信息学软件,以提高可靠性和可重复性。 snpQT的目标用户: 如是你有如下的想法,它也许是有用的: 使用可重复、快速和全面的流程获得一个干净的基因组数据集 对识别某个特征的重要 Snp 关联有兴趣 ...
来自rMVP的关联后的数据;峰拆分输出QTNs getposQTNs.py import os import sys from numpy import median goin = sys.argv[1] ranges = int(sys.argv[2]) file = open(goin,"r") lines = list(file.readlines()) dic = {} dicout = {} for i in lines: i = i.strip() if i.find("SNP")...
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