Out of a total of 247,965 perfect match probes, 95,008 were designated "transcript-specific", i.e. showing complete sequence alignment, no cross-hybridization, and transcript-, nonlynly gene-specificity.
We designated a transcript as being a potential HGMEC transcript if it occurred at least three times in the HGMEC SAGE library and in the ex vivo glomerular library.
The use of miRNA-based technology provides a smart solution for sequence-specific cleavage of any designated target transcript with a great potential for biotechnological approaches for crop protection.
In addition to probe set-to-target-gene mappings, Affymetrix assigns a grade to each probe set according to how well it matches a designated target transcript, independent from the Entrez Gene annotations.
In this study, we found a new splice variant designated CD46 transcript variant (CD46-TV).
Nonetheless, sequence similarity between the designated Leucocytozoon transcripts and the Plasmodium genome showed a wide variation with a mean of 66%% which is substantially lower than the 80 83 % similarity of mitochondrial sequences of L.buteonis to Plasmodium parasites [ 41].
Finally, 121 transcripts were designated as unknown transcripts.
We therefore designate all transcript assemblies, complete or otherwise, as transfrags.
For each strain-gender combination, we evaluated the top 500 transcripts individually, and for a given transcript, we determined whether that transcript had been designated as a signature transcript of a high-scoring (statistically significant) cell population in the inflammation profile calculated for the corresponding strain-gender combination (Figure S3).
Due to uncertainties regarding the names of a number of genes that are probed by many oligonucleotides on the arrays, the term "gene transcripts", used throughout this paper, designates transcripts and genes collectively identified by these probes, except for OR genes that are annotated as such.
