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Table 3 Proteome and Transcriptome Alignments Summary

From: Coupled transcriptome and proteome analysis of human lymphotropic tumor viruses: insights on the detection and discovery of viral genes

   Detected Viral Genes (Tallies) Aligned%
Transcripts + + - - T% §  
Proteins - + + -   P%
KSHV        
BCBL-1 Latent 34 53 3 7 68% 95%
  * Lytic 31 56 3 7 * 95%
BC-1 Latent 28 10 10 49 31% 50%
  Lytic 45 37 5 10 51% 88%
EBV        
BC-1 Latent 21 2 12 58 11% 14%
  Lytic 18 13 28 34 46% 32%
  1. +/- Column: # viral genes detected at only the transcript level
  2. +/+ Column: # viral genes detected at both transcript and protein levels (indicated in bold)
  3. -/+ Column: # viral genes detected at only the protein level
  4. -/- Column: # viral genes not detected at either level
  5. Total Transcripts Possible: KSHV = 97; EBV = 93 (row totals)
  6. Detected Transcripts (+) ≥1.25-fold over reference sample
  7. Undetected Transcripts (-) <1.25-fold over reference sample
  8. Total Proteins Possible: KSHV = 86; EBV = 86
  9. Detected Proteins (+): spectra are observed with the protein
  10. Undetected Proteins (-): spectra are not observed with the protein
  11. Aligned%= 100% × +/+ column ÷ total detected transcripts (T%) or total detected proteins (P%)
  12. §Transcript-to-protein alignments (%) were adjusted to remove non-coding RNAs from the denominator.
  13. * BCBL-1 latent transcripts were aligned to lytic proteins (no transcript analysis was performed with lytic BCBL-1).