P.Innocenti, E.H.Morrow, The sexually antagonistic genes of Drosophila melanogaster, (PLoS Biol. 8: e1000335; 2010).
The authors used commercially available Affymetrix Drosophila 2.0 oligonucleotide arrays to assay gene expression in adult males and females of 15 hemiclonal lines of Drosophila melanogaster. The lines were chosen such that 5 showed high-male/low-female fitness, 5 showed high-female/low-male fitness, and 5 showed average fitness in both sexes. For each line and sex, 4 replicate hybridizations were performed. This resulted in a total of 120 microarray hybridizations (60 of each sex).
The original data are available from the GEO database under series number GSE17013. The original article is available online at PLoS Biology.
Ratios of male-to-female (M/F) expression and their associated p-values were determined using the Bayesian analysis program, BAGEL. For this, the male and female replicates were paired within each hemiclonal line. Because these experiments had very high replication, almost all genes show a significant difference in expression between the sexes, even if the fold-change between males and females is small. Note that the M/F ratio is given as a straight ratio and is not ln or log2 transformed and that a p-value of zero indicates that p<0.0001. For genes with multiple probe sets/transcripts, the value given in Sebida is the average over all probe sets per gene. In cases where there were probe sets to multiple transcripts of a gene, and they gave different results with regard to sex bias, a flag is added to the Sebida database to indicate that sexually dimorphic alternate transcripts were found for that gene. This applies to cases in which at least one alternate transcript is male-biased and another is female- biased, as well as cases where at least one transcript is sex-biased and another is unbiased.