Using 1.2 million SNPs from 173 rice varieties to analyze relative spikelet fertility (RSF) at high temperature and room temperature, Hu et al. (2022) located a new locus, qRSF9.2, where only the gene LOC_Os09g38500 contained a nonsynonymous SNP significantly associated with RSF, and its ...
These Genome-Wide Association Studies, or GWAS, analyze the entire genome of a large number of individuals to identify genetic variants associated with a clinical outcome, such as the ability to naturally control viral replication. Measuring HIV replication control: not enough in African populations T...
Ružičková now proposed a model that might help to analyze “polygenic diseases,” where many regions in the genome contribute to a malfunction. Also, the model serves to understand why the identified genomic regions contribute to these diseases. They do so by combining state-of-the-art ...
Further information can be found in Research Analysis Platform documentation: https://dnanexus.gitbook.io/uk-biobank-rap/working-on-the-research-analysis-platform/using-spark-to-analyze-tabular-data Notebook file: JupyterNotebook_Python/A103_Export-participant-data_Python.ipynb Dependency A Spark ...
To study the effect of MAF pruning, we used PLINK's --maf function for MAF equal to 0.01, 0.05, 0.10 and 0.20 and compared this to the ROH analysis without MAF pruning. To analyze the effect of LD pruning on ROH analyses, we used PLINK's --indep-pairwise function with a scanning ...
Analysis of ordered categorical data: two score-independent approaches. Summary . A trend test is often employed to analyze ordered categorical data, in which a set of increasing scores is assigned a priori. There is a drawback... G Zheng - 《Biometrics》 被引量: 10发表: 2010年 War of ...
With the intensification of the greenhouse effect, a series of natural phenomena, such as global warming, are gradually recognized; when the ambient temperature increases to the extent that it causes heat stress in plants, agricultural production will in
European ancestry12. By 2021, data from the GWAS Diversity Monitor website13indicated that the share of GWAS samples from people with non-European ancestry had grown from that measly 4% to just 12%. The vast majority of historically available data supporting cystic fibrosis testing also comes fr...
There is a growing gap between the generation of massively parallel sequencing output and the ability to process, analyze and interpret the resulting data. New users of sequencing technologies are left to navigate a bewildering maze of base calling, alignment, assembly and analysis tools. Many softw...
Welcome! This repository is a collection of R scripts used to analyze array-based CNV. The primary aim is to get you familiar with looking at CNV descriptive statistics for potential issues, and running CNV burden and individual locus association. I've added a small example dataset that mimics...