REVEAL--visual eQTL analytics.
Bioinformatics
; 28(18): i542-i548, 2012 Sep 15.
Article
em En
| MEDLINE
| ID: mdl-22962479
ABSTRACT
MOTIVATION The analysis of expression quantitative trait locus (eQTL) data is a challenging scientific endeavor, involving the processing of very large, heterogeneous and complex data. Typical eQTL analyses involve three types of data sequence-based data reflecting the genotypic variations, gene expression data and meta-data describing the phenotype. Based on these, certain genotypes can be connected with specific phenotypic outcomes to infer causal associations of genetic variation, expression and disease. To this end, statistical methods are used to find significant associations between single nucleotide polymorphisms (SNPs) or pairs of SNPs and gene expression. A major challenge lies in summarizing the large amount of data as well as statistical results and to generate informative, interactive visualizations. RESULTS:
We present Reveal, our visual analytics approach to this challenge. We introduce a graph-based visualization of associations between SNPs and gene expression and a detailed genotype view relating summarized patient cohort genotypes with data from individual patients and statistical analyses.AVAILABILITY:
Reveal is included in Mayday, our framework for visual exploration and analysis. It is available at http//it.inf.uni-tuebingen.de/software/reveal/. CONTACT guenter.jaeger@uni-tuebingen.de.
Texto completo:
1
Coleções:
01-internacional
Base de dados:
MEDLINE
Assunto principal:
Software
/
Expressão Gênica
/
Polimorfismo de Nucleotídeo Único
/
Locos de Características Quantitativas
/
Estudos de Associação Genética
Tipo de estudo:
Prognostic_studies
Limite:
Humans
Idioma:
En
Ano de publicação:
2012
Tipo de documento:
Article