For the mutations that were identified in both paired samples, there was no significant difference in variant allele frequency (VAF) between the samples (data not shown).
For the mutations involving more than two mutation sites where the correlation between FoldX and experimental data vanishes, the profile-based calculation retains a strong correlation with the experimental measurements.
For the mutations, no such distance criterion was applied to allow for arbitrarily small improvements.
For the mutations identified in recG and cmpA however, the large number of reads identifies them as true positives.
For the mutations near to 3′ and 5′ splice site junctions, the exon flanking splice junction has been considered.
For the mutations a swap-or-replace mechanism is assumed; two anticodon triplets are randomly selected, and if they bear different amino acids, the assignments are swapped.
Some CQR parasites, however, persist in the field and grow well in culture, which may reflect adaptive changes in the parasite genome to compensate for the mutations in PfCRT.
The mutagenesis primers designed for the mutations were as follows (the mutated sequences are underlined): mu- C/EBP α-Forward: 5′-CCTCCTG AACAATGTAGTTCTC-3′, Reverse: 5′-CTACGGGAGCCTGCCATGTTTC-3′; mu-Sp1-Forward: 5′-GGGGTA ATAGACTACGCTCTT-3′, Reverse: 5′-CCGCCGACGACCGGGAACCTAC-3′.
Other targeted drugs are in development for the mutations the team found.
Now tests for the mutations and the analyses of the results are available to neighborhood doctors.
This study was designed to find an efficient and simple diagnostic test for the mutations and deletions.
