Field isolates of <i>Aphis gossypii</i> collected during the 2011/2012 season showing pirimicarb resistance status determined by individual PCR-RFLP.

<p>R: Resistant to Pirimicarb.</p><p>S: Susceptible to Pirimicar.</p

Prediction of RAF by normalizing k’ to Run1 T/S.

<p>RAF*: Predicted resistance allele frequency from Run1 T/S.</p><p><i>k'</i> adj**: normalized transformed fluorescence ratio k’ based on Run1 T/S.</p

Schematic of the calculation of transformed fluorescence ratio <i>k'</i>.

<p>Schematic of the calculation of transformed fluorescence ratio <i>k'</i>.</p

Coefficient of determination R² of inter-run <i>k’</i> with linear and 4 parameter sigmoid curve fitting.

<p>Run1–4 are plasmid mix and run5–7 are pooled aphids.</p

The transformed fluorescence ratio <i>k’</i> comprising 4 runs of plasmid mix (run1-4) and 3 runs of pooled aphids (run5–7) with predefined RAF.

<p>The transformed fluorescence ratio k' is the transformation of the ratio of two fluorescence intensities when one fluorescence reaches its inflexion point.</p><p><b>RAF</b>: Predefined Resistance allele frequency (RAF) expressed as percentage.</p><p><i>K’</i>: Average of transformed fluorescence ratio (<a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0091104#pone.0091104.e017" target="_blank">equation 14</a>) from 3 replicates.</p><p>Inter run CV (%): the average coefficient of variation for a standard among 7 runs.</p><p>Intra run CV (%): the average coefficient of variation for 13 standards within a run.</p><p>*: No replicate.</p

Raw fluorescence plot of TaqMan assay with two probes.

<p>Fam probe (blue) was from resistance allele and Quasar probe (red) was from susceptible allele.</p

Additional file 3: of Genome variants associated with RNA splicing variations in bovine are extensively shared between tissues

Table S1. RNA-seq reads mapped to different bovine genome origins. (XLSX 14 kb

Additional file 10: of Genome variants associated with RNA splicing variations in bovine are extensively shared between tissues

Table S8. SNP overlap between expression QTLs and SNPs with pleiotropic effects on conventional traits of dairy cattle. (XLSX 38 kb

Additional file 7: of Genome variants associated with RNA splicing variations in bovine are extensively shared between tissues

Table S5. Genes that display significant differential splicing between breeds. (XLSX 38 kb

Additional file 8: of Genome variants associated with RNA splicing variations in bovine are extensively shared between tissues

Table S6. Summary of significant cis splicing sQTLs (within 1 Mb distance to the exon). (XLSX 14902 kb