It is thus reasonable to assume that CEP-1 is a representative of the primordial p53 family member that precedes among the vertebrate forms, and the C. elegans CEP-1 may thus encompass gene regulatory roles that are divided among the three vertebrate p53 family member (Derry et al., 2007; Ou et al., 2007).
Conversely, the amplification unit on chromosome 11q13 may encompass other gene(s) that could be the major 11q13 amplicon selector and whose overexpression might contribute to poor clinical outcome.
If the genomic copies encompass genes, the gene family sizes may be different among the compared species, potentially giving rise to functional divergences.
An additional seven gene sets were created to encompass genes with more complex patterns of expression.
Regarding species belonging to the Saccharomyces complex, two sublineages encompass genes from post-WGD species while the remaining two encompass genes from pre-WGD species.
It has been suggested previously that, after initial amplification of HER2, additional chromosomal rearrangement events lead to either telomeric high level amplifications or interstitial deletions, which may encompass the TOP2A gene (Jarvinen et al, 1999).
The locus boundaries delineated by the set of accepted candidate SNPs may encompass several protein coding genes, depending on the strength of LD in the region.
By integrating GWAS and Immunochip data with Gencode data from the Encyclopedia of DNA Elements (ENCODE) project, it has become clear that more than 90% of the AID-associated SNPs map to non-coding, regulatory regions [ 9, 10] that may encompass non-coding RNA genes [ 11].
The introgressed FSSC 9 rDNA included the ITS regions, the large subunit rRNA, and IGS region, and may encompass the entire rDNA gene repeat.
The absence/divergence of these regions may however prove to be significant as these regions may encompass promoter elements and RNA genes, including, for example at present unidentified/uncharacterized cis- or trans-encoded non-coding RNAs.
