A spectral framework to map QTLs affecting joint differential networks of gene co-expression
Fig 3
Identification of stickleback snQTLs via snQTL framework.
(A) Manhattan plot for snQTL testing with tensor statistics marks 21 stickleback snQTLs, mainly clustered in Chr 3, Chr 8, and Chr 18. The y-axis represents the natural logarithms of p-values. The snQTLs are deemed with testing p-values smaller than 0.05 (above the dashed line). (B) Strong genomic targets of selection with high population branch statistic (PBS) distribute around the outstanding snQTLs (markers X419, X423, and X425) in Chr 18. Values above the medial line represent higher PBS in Gosling Lake (blue); values below the line represent higher PBS in Roberts Lake (green). (C) Zoomed-in shadowed area in (B). Development regulation genes, lama4 an d ccn6, locate tightly around marker X419 with high selection speed. (D) Variance stabilized expressions (VSE) for ccn6 and lama4 in Gosling (GG) and Roberts (RR) lakes.