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One would assume that older spacers should be more frequently deleted because they have been inserted for a longer time.
Bergamschi et al. reported 5q11.1 to be more frequently deleted in basal-like subtype tumours [ 28].
Two BAC clones with known genes were significantly more often amplified, and 13 were more frequently deleted in WNY tumours.
The main rearrangements were loss of 1p with a more frequently deleted region at 1pter, gains of 1q and of 8q, and losses of 11q and of 16q.
Although these CN gain regions of PIOL were in common with those of IOCNSL, loss of 6q22.33 containing PTPRK and 9p21.3 containing CDKN2A were more frequently deleted in IOCNSL.
If the term is systematically over-represented in the upper part of the partitions (corresponding to the genes more frequently deleted) we will consider that this GO functionality is systematically deleted.
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These results suggest that frequently deleted regions may harbor one or more TSGs that play important roles in the pathogenesis of various solid malignancies, including NPC.
Among these chromosomal abnormalities, 3p is the most frequently deleted region, implying that 3p may harbor one or more TSGs.
More than half of miRNAs have been aligned to genomic fragile sites or frequently deleted or amplified regions in several malignancies [ 21, 22].
More recently, investigators identified the tumor suppressor gene Chd5 in the human chromosome 1p36, which is frequently deleted in various human cancers [11].
Given the multitude of potential target genes in frequently deleted regions of the cancer genome, strategies to narrow down the candidates for detailed study would lead to more efficient identification of cancer genes.
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