Adaptive local false discovery rate procedures for highly spiky data and their application to RNA sequencing data of yeast SET4 deletion mutants

Genome-wide gene expression data were genertated for wildtype and set4 mutant yeast to determine the contribution of Set4 to gene expression under standard growth conditions. Illumina-based sequencing was performed on strand-specific libraries prepared from mRNA purified from yeast under standard (YPD-rich medium, no stress) growth conditions. Reads were procesed for qualiy control, mapped to the genome, and differential gene expression was determined using based on log fold-change difference between set4 mutants and wildtype. The distribution of the data was highly spiky and an adaptive local false discovery rate analysis was applied to analyze these data. Overall design: Three replicates each of wildtype and set4 mutant yeast under normal growth conditions (YPD medium, 30 degrees C, no stress) are reported