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The program, however, can only be applied to sequencing data produced with an Illumina Genome Analyzer.
In addition to the ability to sequence DNA, massively parallel sequencing can be applied to sequencing RNA [ 22].
Hence, before it can be applied to sequencing data, ClinSeK scans the reference genome to obtain information of paralogous sites that share sequence similarity with the target sites.
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Although the method is applied to sequencing lacZ mutants, this approach can be modified to identify mutations in any reporter gene used in genetic toxicity testing.
Specifically, the same analytical approach and bioinformatics pipeline was applied to sequencing data with drastically different error patterns by employing strict criteria to search for high-quality SNPs.
Móricz's [1] and Gaposhkin [2] showed that some properties of sequences of independent random variables can be applied to sequences consisting of independent blocks.
However, the power of UHTS can be applied to sequence shorter DNA regions obtained by sequence capture or conventional PCR in multiple patients, i.e. to a procedure that is more similar to current routine setups in medical genetic laboratories.
The method cannot be applied to sequences where such information is either unavailable or insufficiently available.
However, it remained to be demonstrated whether the RF methodology could be applied to sequence feature selection for siRNA classification.
Due to this a very strict threshold could be applied to sequence coverage (95%) during the motif search.
Here, we propose a single framework which estimates the similarity of small protein fragments and can be applied to sequence, structure or both simultaneously.
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