Skip to main content

Advertisement

Table 1 Results of cDNA-AFLP screens from ten recent publications.

From: Eukaryotic transcriptomics in silico: Optimizing cDNA-AFLP efficiency

RE1 RE2 PC TDFs Mean TDF Corr. TDF Reference
BstYI MseI 60 4000 66.67 63 [29]
BstYI MseI 64 3793 59.27 213 [30]
BstYI MseI 128 10440 81.56 223 [31]
BstYI MseI 128 7000 54.69 1196 [32]
BstYI MseI 256 5900 23.05 378 [33]
EcoRI MseI 64 3220 50.31 34 [34]
EcoRI MseI 128 2269 17.73 25 [35]
EcoRI MseI 256 12500 48.83 525 [36]
HindIII MseI 32 4320 135.00 26 [37]
PstI MseI 80 1200 15.00 46 [38]
  Average 119.6 5464.2 55.2 272.9  
  Median 104.0 4160.0 52.5 138.0  
  1. TDFs are the number of transcript-derived fragments produced in each screen, while PC indicates the number of primer combinations tested in each study. Mean TDF indicates the average numbers of fragments generated per primer combination, while Corr TDF identifies the number of transcript-derived fragments that were found to be correlated to the trait under investigation. Restriction enzymes (RE) listed in column RE1 are characterized by recognition sites of 6 bp, while RE2 (here: MseI) is a 4 bp-cutter.