Selected article for: "amplicon length and mathematical model"
Author: Chenyu Li; David N. Debruyne; Julia Spencer; Vidushi Kapoor; Lily Y. Liu; Bo Zhou; Lucie Lee; Rounak Feigelman; Grayson Burdon; Jeffrey Liu; Alejandra Oliva; Adam Borcherding; Hongdong Tan; Alexander E. Urban; Guoying Liu; Zhitong Liu
Title: High sensitivity detection of coronavirus SARS-CoV-2 using multiplex PCR and a multiplex-PCR-based metagenomic method
  • Document date: 2020_3_14
    • ID: 0hxan9rw_8
    Snippet: We thus designed a panel of 172 pairs of multiplex PCR primers for the sensitive detection of SARS-CoV-2 ( Fig. 1B) . The average amplicon length is 99bp. The amplicons run across the entire SARS-CoV-2 genome with a 76bp gap (76±10bp) between each amplicon. Since the observed efficiency of multiplex PCR is about 26% in amplifying the four DNA strands of a pair of human chromosomes, we assumed an efficiency of 6% in amplifying a single-strand of .....
    Document: We thus designed a panel of 172 pairs of multiplex PCR primers for the sensitive detection of SARS-CoV-2 ( Fig. 1B) . The average amplicon length is 99bp. The amplicons run across the entire SARS-CoV-2 genome with a 76bp gap (76±10bp) between each amplicon. Since the observed efficiency of multiplex PCR is about 26% in amplifying the four DNA strands of a pair of human chromosomes, we assumed an efficiency of 6% in amplifying a single-strand of cDNA. In addition, it has already been reported that 79% of variants are recovered when directly amplifying 600 amplicons from a single cell using our technology 44 . Therefore, we assume that 80% of amplicons would be amplified successfully. Using the same mathematical model described above, we estimated that our specific SARS-CoV-2-designed panel can detect 1.15 copies of the virus at 95% probability (Fig. 1C) . Again, the LOD is independent of virus genome size.

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