<p>The cutoff values for each FDR were determined via permutation; see <a href="http://www.plosgenetics.org/article/info:doi/10.1371/journal.pgen.1003649#s4" target="_blank">Methods</a> for details.</p
Figure S3. Relation between FDR and p-value cutoff. Each panel shows the relation between FDR and p-...
<p>Estimates of the percentage of genetic variance explained can be greater than 100% due to underes...
Different percentages (P) of simulated DA features are on rows, while different sample size (SS) val...
<p>Plots showing the counts of <i>cis</i>- and <i>trans</i>-eQTL versus a range of FDR significance ...
<p>Panels A, B and C show FNR (%) for sequencing coverage of 10X, 20X and 30X, and panels D, E and F...
<p><b>A</b> Concept of FDR calculation which relies on the availability of a normal tissue replicati...
<p>FDR 0.05 level corresponds to <i>P</i>–value thresholds 4.8e-4 (<i>cis</i>) and 6.2e-10 (<i>trans...
<p>Each row depicts the fraction of cis-eQTLs discovered using a particular normalization method tha...
<p>The GO-terms for microarray are in bold, because the p-value was used as a cutoff instead of the ...
<p>Overlap of <i>cis</i>-eQTLs (FDR<5%, p<2.4×10<sup>−4</sup>) and GWAS SNPs nominally significant (...
<p>FDR: false discovery rate; FWER: family-wise error rate; SD: standard deviation; IQR: inter-quart...
*<p>Only significant eQTLs with FDR<0.05 for both <i>cis-</i>regulated tags were used.</p
<p>The numbers are based on the statistical procedure and threshold used in the original publication...
<p>1-per-genome FDR critical H12<sub><i>o</i></sub> values for different demographic models and reco...
<p>FDR, estimated by the average proportion of erroneously identified epistatic effects among all id...
Figure S3. Relation between FDR and p-value cutoff. Each panel shows the relation between FDR and p-...
<p>Estimates of the percentage of genetic variance explained can be greater than 100% due to underes...
Different percentages (P) of simulated DA features are on rows, while different sample size (SS) val...
<p>Plots showing the counts of <i>cis</i>- and <i>trans</i>-eQTL versus a range of FDR significance ...
<p>Panels A, B and C show FNR (%) for sequencing coverage of 10X, 20X and 30X, and panels D, E and F...
<p><b>A</b> Concept of FDR calculation which relies on the availability of a normal tissue replicati...
<p>FDR 0.05 level corresponds to <i>P</i>–value thresholds 4.8e-4 (<i>cis</i>) and 6.2e-10 (<i>trans...
<p>Each row depicts the fraction of cis-eQTLs discovered using a particular normalization method tha...
<p>The GO-terms for microarray are in bold, because the p-value was used as a cutoff instead of the ...
<p>Overlap of <i>cis</i>-eQTLs (FDR<5%, p<2.4×10<sup>−4</sup>) and GWAS SNPs nominally significant (...
<p>FDR: false discovery rate; FWER: family-wise error rate; SD: standard deviation; IQR: inter-quart...
*<p>Only significant eQTLs with FDR<0.05 for both <i>cis-</i>regulated tags were used.</p
<p>The numbers are based on the statistical procedure and threshold used in the original publication...
<p>1-per-genome FDR critical H12<sub><i>o</i></sub> values for different demographic models and reco...
<p>FDR, estimated by the average proportion of erroneously identified epistatic effects among all id...
Figure S3. Relation between FDR and p-value cutoff. Each panel shows the relation between FDR and p-...
<p>Estimates of the percentage of genetic variance explained can be greater than 100% due to underes...
Different percentages (P) of simulated DA features are on rows, while different sample size (SS) val...
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