Author: Gardner, Shea N.; Jaing, Crystal J.; Elsheikh, Maher M.; Peña, José; Hysom, David A.; Borucki, Monica K.
Title: Multiplex Degenerate Primer Design for Targeted Whole Genome Amplification of Many Viral Genomes Document date: 2014_8_3
ID: 1e44usl6_3
Snippet: For the viral groups we used here, the target sets included up to hundreds of sequences, and in many cases consensus was extremely low, as little as 5% of the bases in the multiple sequence alignment ( Table 1 ). The JCVI Primer Designer pipeline with a manual approach of subdividing the sequences into groups with 90% consensus and running each group separately could be a labor-intensive endeavor and would certainly result in a large number of si.....
Document: For the viral groups we used here, the target sets included up to hundreds of sequences, and in many cases consensus was extremely low, as little as 5% of the bases in the multiple sequence alignment ( Table 1 ). The JCVI Primer Designer pipeline with a manual approach of subdividing the sequences into groups with 90% consensus and running each group separately could be a labor-intensive endeavor and would certainly result in a large number of singleplex reactions to cover each genome.
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