To minimize the sequencing errors caused by DNA damage, we performed uracil-DNA glycosylase treatment (Do and Dobrovic, 2012) during DNA extraction from FFPE samples (Fig. S3).
To minimize the sequencing error, the last 6 bp of the reads were trimmed before analysis, resulting in 30 bp paired-end reads.
To minimize the sequencing artifacts by PCR, amplicons from at least two different PCRs were sequenced using forward and reverse primers.
The last three bases from the 3′ end of each read were removed to minimize the sequencing error, which is usually higher in the 3′ end of reads.
Last three base pairs from each read were removed in order to minimize the sequencing error, which is usually higher in the 3' end of reads.
Each dataset was normalized using the trimmed mean of M-values normalization method proposed by Robinson & Oshlack [ 23], to remove systematic technical effects and minimize the sequencing technical bias on the data.
To minimize the sequencing cost and maximize the putative applied outcome, the eight control individuals were chosen as being homozygous mutant for two additional distinct recessive diseases (four mutants each) for which the chromosomal location was known but the causative genes and mutations were still to be found.
With this criterion, we propose the piling algorithm to minimize the sequence length, then we show this algorithm is an optimal APS algorithm in commutative semigroups in the worst case.
Probably, the genes in Klebsiella phage KP34 and Vibrio phage VP93 have undergone a high rate of divergence rate which minimized the sequence similarity.
This approach is feasible because purifying selection, acting on the open reading frames of coding exons and aimed at preserving encoded protein sequences, minimizes the sequence divergence that can occur.
