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Fig. 1 | Genetics Selection Evolution

Fig. 1

From: Genome-wide analysis of expression QTL (eQTL) and allele-specific expression (ASE) in pig muscle identifies candidate genes for meat quality traits

Fig. 1

Genome-wide eQTL analysis. a QQ-plot of -Log10(p value) of eQTL analysis using MatrixEQTL. “Cis p values” represent the statistical p values for cis-eQTL and “Trans p values” represent the statistical p values for trans-eQTL. b Scatter plot of all characterized eQTL. Each dot represents a SNP-gene pair, with the vertical direction linking to the SNP and the horizontal direction linking to the gene. The red and blue dots represent cis-eQTL and trans-eQTL respectively. The size of the dot indicates the degree of significance. c Density distribution of the cis-eQTL effects. “all local events” represents all the SNP-gene pairs for which the distance between SNP and gene is less than 1 Mb. d Comparison of the heritability of the expression levels of cis-eQTL associated genes and that of non-cis-eQTL genes. The white dots represent the median values. The p value indicates the difference between the two groups, which was calculated using a two-tailed t-test. e Comparison of the expression levels of cis-eQTL-associated genes and non-cis-eQTL genes. The white dots represent the median values. f Analysis of eQTL pleiotropy. The X-axis of the histogram represents different groups that were classified according to the associated gene numbers per eQTL, and the Y-axis represents the eQTL count for each group. cis-eQTL and trans-eQTL are distinguished by different colors. g Distribution of eQTL hotspot. The X-axis represents the chromosome distribution of eQTL, the Y-axis indicates the count of genes associated with each eQTL. The upper part displays the cis-eQTL hotspot distribution, and if the count of associated genes is greater than 3, it is shown in red. The lower part in displays the trans-eQTL hotspot distribution, and if the count of associated genes is greater than 3, it is shown in green

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