A genotype calling algorithm for affymetrix SNP arrays
Bioinformatics
Extensions to gene set enrichment
Bioinformatics
Bioinformatics
A 2-phased approach for detecting multiple loci associations with traits
International Journal of Data Mining and Bioinformatics
New cluster ensemble approach to integrative biological data analysis
International Journal of Data Mining and Bioinformatics
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We recently developed the Projection Onto the Most Interesting Statistical Evidence (PROMISE) procedure that uses prior biological knowledge to guide an integrated analysis of gene expression data with multiple biological and clinical endpoints. Here, PROMISE is adapted to the integrated analysis of pharmacologic, clinical and genome-wide genotype data. An efficient permutation-testing algorithm is introduced so that PROMISE is computationally feasible in this higher-dimension setting. In the analysis of a paediatric leukaemia data set, PROMISE effectively identifies genomic features that exhibit a biologically meaningful pattern of association with multiple endpoint variables.