HIV-1 subtype B plasmid mixtures Raw sequence reads

We designed nine in silico plasmid constructs comprising a 950-bp region of the HIV-1 subtype B polymerase (pol) gene that were then synthesized and cloned into pUCIDT-Amp (Integrated DNA Technologies, Skokie, IL). Each clone was confirmed by Sanger sequencing. This 950-bp region at the beginning of pol contains known protease and reverse transcriptase genes that are monitored for drug-resistant mutations and is monitored with sequence analysis for patient care. Each of these plasmids contains a specific set of point mutations chosen using mutation profiles from a real clinical study to create nine unique synthetic HIV-1 pol haplotypes.