Data structures and algorithms for analysis of genetics of gene expression with Bioconductor: GGtools 3.x.
basic_science · Level V
Where this comes from
- Record sourced from PubMed, PMID 19349284.
- Also identified by DOI 10.1093/bioinformatics/btp169 and PMC identifier 2682516.
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Abstract
Associations between DNA polymorphisms and mRNA abundance are a natural target of genetic investigations, and microarrays facilitate genome-wide and transcriptome-wide surveys of these associations. This work is motivated by emerging requirements for data architectures and algorithm interfaces to allow flexible exploration of public and private archives of genotyping and expression arrays. Using R/Bioconductor facilities, Phase II HapMap genotypes and Illumina 47K expression assay results archived on multiple populations may be interactively explored and analyzed using commodity hardware. Open Source. Bioconductor 2.3 packages GGtools, GGBase, GGdata, hmyriB36. Freely available on the web at (http://www.bioconductor.org).
Medical subject headings
- Algorithms
- Gene Expression Profiling
- Oligonucleotide Array Sequence Analysis
- Polymorphism, Single Nucleotide
- Software