In that case, selection based on intervals can give more accurate results than selection based on individual markers [ 10].
The phylogeny based on individual markers revealed incongruent phylogenetic signal among 6 of the 10 individual genes.
In contrast, when detection was based on individual markers, a much larger proportion of the detected QTL were large QTL.
At a clinical level, this model can provide the physician and the patient with accurate prediction to assist on the decision making of treatment strategies: this results into individualized treatment, not based on one individual marker, but on different pillars related to the patient, the tumour and the most suitable, appropriate treatment.
Despite the good performance in within-dataset experiments, gene-based classifiers performed typically worse than many pathway-based classifiers, which shows the poor reproducibility of the feature sets based on individual gene markers.
However, finding reliable gene markers is a challenging problem, and several recent studies have questioned the reliability of many classifiers based on individual gene markers [13] [19].
Unlike conventional expression diagnostic markers based on individual genes, these network-based diagnostic markers should be inherently more reliable since they provide the biological interpretation for the association between the subnetwork biomarker and the particular type of disease [ 32].
The plot of a principal coordinate analysis (PCoA), based on individual genetic distances calculated with 208 AFLP markers, is presented in Additional file 2. The first two axes explained 71.8% and 3.0% of the variation, respectively (explaining 74.8% of total variability).
Finally, a bonus based on individual performance.
Combined marker analyses showed that favorable expression of all markers (low H3K4me3, high H3K9me3 and high H4K20me3, as based on the individual marker analyses) was associated with the best prognosis with respect to patient survival and tumor recurrence.
