We are sorry, but NCBI web applications do not support your browser and may not function properly. More information

Results: 3

1.
Figure 2.

Figure 2. From: Population genomics in a disease targeted primary cell model.

Fine-mapping and validation of the serine racemase (17p13.3) locus. (A) The serine racemase (SRR) gene located on chromosome 17 was fine-mapped and re-sequenced; (B) the SNPs were associated with expression levels of SRR in 94 cultured human osteoblasts. (C) The P-values from linear regression analysis represented as –log10(P-value) are shown as vertical bars with a horizontal line indicating a cutoff of P = 10−4. SNPs in close LD with rs1885987 showing the most significant association with SRR expression are marked in red. (D) The HapMap PhaseII CEU LD blocks are shown as a diamond-shaped plot using log odds (LOD) measures.

Elin Grundberg, et al. Genome Res. 2009 November;19(11):1942-1952.
2.
Figure 3.

Figure 3. From: Population genomics in a disease targeted primary cell model.

Difference in ranking of BMD GWAS SNP following sample size increase. The top ∼200 ranked SNPs that were identified in an extended GWAS (from 6865 to 8510 Icelandic subjects) of BMD were functionally validated using HOb cis-eQTLs. The rank order differences, i.e., ranking in original GWAS-ranking in extended GWAS, (y-axis) of each SNP (x-axis) are connected with a line. SNPs are sorted based on cis-eQTL P-value where the SNPs with the smallest values are presented to the left and vice versa. The specific rs-number of every 7th SNP is presented on the x-axis but the line chart includes data points from all 200 SNPs.

Elin Grundberg, et al. Genome Res. 2009 November;19(11):1942-1952.
3.
Figure 1.

Figure 1. From: Population genomics in a disease targeted primary cell model.

eQTLs in biological replicates of primary human osteoblasts. All expression traits from two biological replicates (replicate 1 = R1 and replicate 2 = R2) of 94 cultured human osteoblasts were tested in separate analysis for association with SNPs with putative cis- or trans-regulatory effects. The overlap between the replicates (white bars) was calculated at different P-value thresholds of R1 ranging from P < 5 × 10−8 – 1 × 10−4 (x-axis) and compared with the average statistical power (black bars) to detect the differences using alpha = 5 × 10−4 (R2) and effect sizes (r2) corresponding to each significant eQTL in R1. (A) cis-eQTLs are defined as expression traits associated with SNPs located ±250 kb region flanking either side of the gene. (B) Trans-eQTLs include SNP–gene associations located on different chromosomes.

Elin Grundberg, et al. Genome Res. 2009 November;19(11):1942-1952.

Supplemental Content

Recent activity

Your browsing activity is empty.

Activity recording is turned off.

Turn recording back on

See more...
Write to the Help Desk