<p>The consensus sequence for each unpassaged parent sample was compared to its passaged descendants. For each sample that clustered away from the unpassaged parent (<a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0052752#pone-0052752-g001" target="_blank">Figure 1</a>), the percentage of passaged consensus SNPs that were present as variants in the unpassaged sample is shown on the y- axis. The x-axis shows the name of the passaged descendant identified by sample (1, 27, or 59), host cell type (BO, THP or HRT) and passage number (1, 4 or 5).</p
<p>A total of 64,720 putative SNP loci were found in 19,172 unigenes, and the transition and transve...
<p>All panels show the SFS of derived alleles constructed from intronic sites. The notation of mutat...
<p>The top 35 associated SNPs are listed together with the surrounding genes defined by either Grail...
<p>The Y-axis shows the proportion of nucleotide positions in <i>gag</i> (A; 1500nt), <i>gp120</i> (...
Reference is the consensus sequence of the inoculum and minority represents the polymorphic base at ...
<p>Genes containing variants were identified with the <i>disease association panel</i> (<b>A-C</b>) ...
The frequency of each variant within the overall population was determined based on the number of co...
<p>Participants are ordered by the number of SNVs to the most closely related sample. The participan...
<p>Variant filtering representation through the number of SNPs remaining after the various filtering...
<p>Variants were judged as known by their being listed in dbSNP. Variant counts for those unique to ...
SNP associations are replicated across populations. Replication of association signals is the sine q...
Proportions of individuals with pathogenic SNVs in the study cohort, compared with the corresponding...
<p>The pairwise distance of each viral variant on the (A) nucleotide and (B) amino acid phylogenetic...
Plot over number of shared candidate disease-causing variants when successively adding up to 11 affe...
<p>(A, B, C) eQTL replication frequency (y-axis) as a function of discovery significance (x-axis: )....
<p>A total of 64,720 putative SNP loci were found in 19,172 unigenes, and the transition and transve...
<p>All panels show the SFS of derived alleles constructed from intronic sites. The notation of mutat...
<p>The top 35 associated SNPs are listed together with the surrounding genes defined by either Grail...
<p>The Y-axis shows the proportion of nucleotide positions in <i>gag</i> (A; 1500nt), <i>gp120</i> (...
Reference is the consensus sequence of the inoculum and minority represents the polymorphic base at ...
<p>Genes containing variants were identified with the <i>disease association panel</i> (<b>A-C</b>) ...
The frequency of each variant within the overall population was determined based on the number of co...
<p>Participants are ordered by the number of SNVs to the most closely related sample. The participan...
<p>Variant filtering representation through the number of SNPs remaining after the various filtering...
<p>Variants were judged as known by their being listed in dbSNP. Variant counts for those unique to ...
SNP associations are replicated across populations. Replication of association signals is the sine q...
Proportions of individuals with pathogenic SNVs in the study cohort, compared with the corresponding...
<p>The pairwise distance of each viral variant on the (A) nucleotide and (B) amino acid phylogenetic...
Plot over number of shared candidate disease-causing variants when successively adding up to 11 affe...
<p>(A, B, C) eQTL replication frequency (y-axis) as a function of discovery significance (x-axis: )....
<p>A total of 64,720 putative SNP loci were found in 19,172 unigenes, and the transition and transve...
<p>All panels show the SFS of derived alleles constructed from intronic sites. The notation of mutat...
<p>The top 35 associated SNPs are listed together with the surrounding genes defined by either Grail...