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According to his analysis, a large portion of these LoF variations are false positives attributed to both sequencing errors and annotation errors in the reference.
This is made practical through sophisticated indexing schemes, such as the Burrows–Wheeler transform (Burrows and Wheeler, 1994), so that many billions of reads can be efficiently mapped allowing for both sequencing errors and true variations.
Experimental design, such as separately sequencing the individual samples from each strain; either through barcoding of the individual samples if run on the same lane or having each on a separate lane, rather than pooling the samples before sequencing, can provide support in detecting both sequencing errors and biological noise, and should be considered for future studies.
We studied the genomic complexity of the regions surrounding these loci and the geographical origins of their alleles and we found that their presence in the human reference assembly can be due to both sequencing errors and rare/private variants of the anonymous individuals used by the Human Genome Project.
Overall, from these results we can conclude that the presence of these rare alleles in the reference assembly of the human genome can be ascribed to both sequencing errors and private variants of the anonymous individuals used by the human genome project.
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As a consequence there were high numbers of both false positives created by sequencing errors, and false negatives resulting from data that did not meet the conditions set by the researchers, such as minimum number of sequences or sequence similarity surrounding a SNP.
This process is further complicated by the presence of haplotypic ambiguities, sequencing errors and repetitive sections.
However, sequencing errors and additional variation described earlier mean.
Even sequencing errors and artifacts depend on the technology [ 6].
This is purported to reduce sequencing errors, and to permit better distinction between sequencing errors and polymorphisms (Applied Biosystems, 2008).
The reason might be sequencing errors and potential sequence variations among individual plants.
Related(12)
both sequencing decisions and
both sequencing platforms and
both sequencing technologies and
both handling errors and
both sequencing experiments and
both tracking errors and
both reporting errors and
both sequencing data and
both sequencing techniques and
both picking errors and
both sequencing problems and
both sequencing directions and
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