The QTL cp4.1 was mapped within a cluster of candidate genes, while cp4.2 mapped between two candidate genes.
Each cluster of candidate voxels of infarct was further divided into one or several labels, at most the same number as the voxel number in that cluster.
Third, ALL2 shows a cluster of candidate SNVs with allele fractions around 0.5 in the normal sample and close to 1 in the ALL sample.
Step 6 (eliminating labels with insufficient intensity) Each cluster of candidate voxels of infarct was further divided into one or several labels, at most the same number as the voxel number in that cluster.
We also analyzed a cluster of candidate genes that cooperatively participated in functional regulation of blast disease resistance, or had a direct role in regulation, as observed in the a previous study [ 28].
Duijvesteijn et al. [ 30] firstly reported a GWAS for androstenone levels in pigs by 60K SNP array and revealed a cluster of candidate genes on Sus scrofa chromosome (SSC) 6.
An additional QTL region, QTL region D, was not significant as determined by our criteria, and it spans the centromere of chromosome 3 (so resolution is poor); nonetheless we discuss it in this section as the interval defined by this QTL includes several a priori candidate genes and the architecture of the peak mirrors this cluster of candidate genes.
Tests of selection reveal a cluster of candidate genes in each locus, suggesting that weak directional selection may be occurring within a small region of each locus, but coding changes alone are unlikely to explain the full range of wing pattern diversity.
All together, our process includes a three-step noise filter comprised of 1) prioritization of candidates by consistency of reported directional gene expression changes, 2) functional enrichment and 3) co-clustering of candidates in a network [ 18].
When all TNPO3 candidate sequences were clustered by NJ, a cluster of robust candidates identified by phylogenetic analysis (data not shown), was formed with more diverged candidates being excluded (Figure S2(h)).
