One transcript fulfilling these criteria is serpin-a3n, the murine homolog of human alpha-1-antichymotrypsin (α1-ACT), a serine proteinase inhibitor which has been previously implicated in the pathogenesis of Alzheimer's disease [17], [18] and which has been reported to be a candidate plasma and CSF biomarker of Alzheimer's disease (AD) [19], [20], [21], [22].
From this, we generated 2 additional covariates for 1) total average expression level from all transcripts and 2) total average expression level for all transcripts that were detected in all individuals (5269 transcripts fulfilled the latter criteria).
35.264 transcripts fulfilled this criterion.
It is reasonable to assume that a larger size of HGMEC SAGE library would probably lead to the detection of a higher number of NRGN tags and more transcripts fulfilling same criteria.
Moreover, we believed that transcripts fulfilling both criteria, specificity to the oocyte and evolutionarily conserved, are potentially important maternal genes involved in key functions of oocyte maturation and early development.
To test the expression of genome-predicted sequences, we selected 25 genome-predicted transcripts that fulfilled the following criteria: not represented in any transcript dataset (Hydra-bo, AEP- 454, ESTs), but matching a jellyfish ortholog that would be expressed among the Clytia EST dataset (Additional file 4).
Further, the transcriptome of cells and organs comprise a focused set of transcripts that fulfills discrete but varied cellular functions.
Out of the 33,458 analyzed transcripts, only gene24414 fulfilled both requirements.
35,264 transcripts in monocytes that fulfilled the threshold criteria for expressed genes (a raw expression value of at least 20 in half of all measured array was considered as "expressed") were analyzed by principal component analysis (PCA).
However, only ACTB and HSP 60 had been successfully fulfilled the complete validation process which included transcript expression.
