Unknown

Dataset Information

0

TraseR: an R package for performing trait-associated SNP enrichment analysis in genomic intervals.


ABSTRACT: Genome-wide association studies (GWASs) have successfully identified many sequence variants that are significantly associated with common diseases and traits. Tens of thousands of such trait-associated SNPs have already been cataloged, which we believe form a great resource for genomic research. Recent studies have demonstrated that the collection of trait-associated SNPs can be exploited to indicate whether a given genomic interval or intervals are likely to be functionally connected with certain phenotypes or diseases. Despite this importance, currently, there is no ready-to-use computational tool able to connect genomic intervals to phenotypes. Here, we present traseR, an easy-to-use R Bioconductor package that performs enrichment analyses of trait-associated SNPs in arbitrary genomic intervals with flexible options, including testing method, type of background and inclusion of SNPs in LD.The traseR R package preloaded with up-to-date collection of trait-associated SNPs are freely available in Bioconductorzhaohui.qin@emory.eduSupplementary data are available at Bioinformatics online.

SUBMITTER: Chen L 

PROVIDER: S-EPMC5860183 | biostudies-other | 2016 Apr

REPOSITORIES: biostudies-other

altmetric image

Publications

traseR: an R package for performing trait-associated SNP enrichment analysis in genomic intervals.

Chen Li L   Qin Zhaohui S ZS  

Bioinformatics (Oxford, England) 20151218 8


<h4>Unlabelled</h4>Genome-wide association studies (GWASs) have successfully identified many sequence variants that are significantly associated with common diseases and traits. Tens of thousands of such trait-associated SNPs have already been cataloged, which we believe form a great resource for genomic research. Recent studies have demonstrated that the collection of trait-associated SNPs can be exploited to indicate whether a given genomic interval or intervals are likely to be functionally c  ...[more]

Similar Datasets

| S-EPMC9805564 | biostudies-literature
| S-EPMC9805586 | biostudies-literature
| S-EPMC5952862 | biostudies-literature
| S-EPMC8406447 | biostudies-literature
| S-EPMC4461920 | biostudies-literature
| S-EPMC10471896 | biostudies-literature
| S-EPMC3600003 | biostudies-literature
| S-EPMC10224671 | biostudies-literature
| S-EPMC3102637 | biostudies-literature
| S-EPMC5690570 | biostudies-literature