The most variable genes were CASP3 (low expression) and LYZ (high expression).
To be able to compare single-cell datasets processed in different batches and thus with dissimilar library preparations and sequencing depths, Dulken et al. mapped Llorens-Bobadilla and colleagues' datasets using their own pipeline and then performed PCA with the most variable genes.
Figure 5A compares the two designs using the most variable genes from the single channel design, and Figure 5B uses the most variable genes from the reference design.
This implies that the filtering method determined by choosing the most variable genes in the reference design is superior to choosing the most variable genes in the single channel design.
The regions under positive selection coincide with the rrgA and rrgB genes, which are the most variable genes in the rlrA islet.
The most variable A haplotype genes are in the telomeric half, whereas the most variable genes characterizing B haplotypes are in the centromeric half.
This gene was recently shown to be one of the most variable genes in a study of the initial 12 hours of mouse embryonic stem cell variation [38].
As previously noted, we may have been comparing different gene sets because the most variable genes in the reference design did not necessarily coincide with the most variable single channel design genes.
Hypothesis free clustering of the 1000 most variable genes in the data set shows that, despite being from three different sources, ESFT form a group distinct from all other tissues that were analyzed (Figure S1) and within this cluster ESFT from the three sources are intermixed.
Figure 9 shows the most variable genes of this set.
The most variable genes were detected with the Maanova package [ 34].
