Figure 2.
Manhattan Plots of GWAS Results for HSPC Frequency in the HMDP
(A) The frequency of LSKCD150+CD48− cells was significantly associated with a locus on chromosome 18 harboring Mapk4 and suggestively associated with a region on chromosome 11 near Nmur2 and Gria1.
(B) A GWAS for LSK cells revealed several suggestively associated loci on chromosomes 2, 4, 6, and 18 as well as a highly significant locus on chromosome 15 containing Ly6e-Ly6a-Ly6f.
(C) Three significantly associated loci on chromosomes 1, 5, and 15 were identified in the GWAS analysis for LSKCD150−CD48− cells, as well as several suggestively associated regions on chromosomes 3, 11, 17, and 18. For each significantly associated locus, the gene(s) nearest to the peak SNP is indicated. The GWAS analyses for each of the three HSPCs included 3–8 mice per strain (N = 467) and 880,924 SNPs, whose genomic positions are shown along the x axis with their corresponding −log10 p values indicated by the y axis. The genome-wide thresholds for significant (p = 4.1 × 10−6) and suggestive (p = 4.1 × 10−4) evidence of association are indicated by the horizontal red and blue lines, respectively.
See also Figure S3.