Fig. 3: Characterization of expression quantitative trait loci (eQTLs) for panicle and leaf tissues. | Nature Communications

Fig. 3: Characterization of expression quantitative trait loci (eQTLs) for panicle and leaf tissues.

From: The pan-tandem repeat map highlights multiallelic variants underlying gene expression and agronomic traits in rice

Fig. 3

a Statistical comparison of genes for which expression levels were significantly associated with genetic variants (eGenes) in the panicle and young leaf tissues. b Manhattan plot of a panicle-specific eGene DHT1(LOC_Os04g54440). DHT1 was expressed in both leaf and panicle tissues. Genetic variants were significantly associated with its panicle expression variations, other than leaf expression variation. c Pearson correlation analysis between TR repeat numbers and normalized panicle expression of the gene DHT1(LOC_Os04g54440). The error bands indicate 95% confidence intervals. The p-values were calculated by two-sided t test. d, e Statistical comparison of eGenes identified using different genomic variants as markers in the panicle (d) and the young leaf tissues (e). f Example of eGenes identified only with TR markers in the panicle. g Pearson correlation analysis between the TR repeat number and LOC_Os01g02910 expression in the panicle. The error bands indicate 95% confidence intervals. The p-values were calculated by two-sided t test. Source data are provided as a Source Data file.

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