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Then, it selects the next test case among the candidates and adds in the prioritized sequence.
Initially, the prioritized sequence is empty and the algorithm selects the first test case randomly from the input domain.
To apply this strategy, two sets of test cases are required: the prioritized sequence (the sequence of distinct test cases already in order) and the candidate set (the set of test cases randomly selected without replacement).
In our assemblies we prioritized sequence accuracy over other criteria, such as total number of transcripts and length of total assembled sequence.
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Target sequences were blasted and the highest prioritized database sequence they aligned to with ≥ 90% identity over ≥ 50% of their length was used for annotation.
Therefore, the prioritized test case sequence is iteratively built, mainly through heuristics and functions for test cases evaluation.
A variety of approaches can be considered for producing a patient-specific vaccine, such as a multivalent DNA vaccine that includes the prioritized peptide-encoding sequences in a vaccine vector, or a dendritic-cell vaccine that uses patient-specific peptides to stimulate the patient's own dendritic cells to induce T-cell memory [ 37].
Comparing prioritized predicted ESEs with known sequence variants in BRCA1 highlights 14 reported sequence changes that are predicted to affect ESEs (Table 3).
Ultimately, however, functional analysis of these prioritized predicted ESEs and corresponding sequence changes will be essential to validate the in silico approach used in this and other studies.
Exome sequencing results for prioritized variants were validated using specific primers for polymerase chain reaction amplification designed using Primer3Plus (http://primer3plus.com/cgi-bin/dev/primer3plus.cgi) and Sanger sequencing (GATC Biotech, Cologne, Germany).
The evolutionarily conserved noncoding elements associated with TF-encoding genes in the TFCONES database represent a highly prioritized set of cis-regulatory sequences.
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