Only clear and highly reproducible bands between two technical replications (starting fro the digestion/ligation step) were scored.
Only clear and reproducible variant bands between two technical replications were considered as putative new insertions by the Dart-related TEs, and recovered for sequencing.
By using 17 pairs of EcoRI + HpaII/ MspI primer combinations (see Additional file 1), 696, 731 and 706 clear and reproducible MSAP bands (between two technical replicates) were scored for each of the genotypes, V14, V27 and R09, respectively.
By using 18 pairs of selective primer combinations (Additional file 1), 1,165, 1,142, 1,221, 1,227, 1,216, and 1,215 reproducible bands (between two technical replicates, seeMethods) were resolved for three kinds of samples (seed-plants, calli and regenerants) from each of the six genotypes.
Using 16 pairs of selective EcoRI + HpaII/ MspI primer combinations (Additional file 1), 940,922,1,018,1,031,1,017 and 1,013 clear and reproducible MSAP bands (between two technical replications, seeMethods) were scored for the three kinds of samples (seed-plants, calli and regenerants) of each of the six genotypes, as for AFLP.
The correlation coefficients between two technical replicates of gels from each cell line were also determined.
b) Correlation coefficient between two technical replicates of gels from a given cell line.
Including all 465 samples, the correlation between the two technical approaches was examined.
In case only two technical replicates were used, samples for which the dCq between the two technical replicates was bigger than 0.5 were also excluded from the calculations.
For both markers, two technical replications (starting from independent DNA isolation) were performed and only clear and completely reproducible bands were scored.
We need two technical lemmata.
