JOB ID = ICBP-summary-Nature.csv_db138-2thresh5e-06_complete_BACKCIRC_pj0.1_f5ep

Of 417 SNPs in input data, 20 were found in FANTOM5 TSS regions (300-TSS-100bp). The input set contained 0.4 SNPs per million bases in TSS regions, compared with 0.13 SNPs per million bases genome-wide. 25 TSS regions were hit, in 13 distinct regions. Results are shown below for coexpression within the input set compared with 100 pre-mapping (genome-wide) permutations. Download full results file here.

Please cite: Baillie JK et al. Shared activity patterns arising at genetic susceptibility loci reveal underlying genomic and cellular architecture of human disease. https://doi.org/10.1101/095349.

Link threshold (-log10 p):

0 4

Significantly coexpressed regulatory regions

Other regulatory regions containing a variant

CircosPlot

Circular (Circos) plot of co-expression links between different locations on the genome. The coloured track shows an end-to-end concatenated view of the human chromosomes. Links depict an association between two SNP clusters and are coloured according to -log10(p)(line colour indicates -log10(p): red>3, blue>2, green>1.5).

QQ plot

Quantile-quantile plot showing observed and expected co-expression scores. Expected co-expression scores are derived from circular permuted subsets of regulatory regions (post-mapping permutations; black circles) or SNPs chosen by circular permutations against the background of all SNPs genotyped in each study.

No significantly enriched cell types in this analysis.

Top promoter[SNPs in top promoter]Corrected
coexpression
score
Bonferroni-corrected
p-value
FDR
p@chr1:11905830..11905839,- [rs5068]0.540.110.09
enhancer@chr11:10350347-10350728 [rs7129220]0.460.240.09
p@chr11:16916978..16916996,- [rs11024074]0.440.260.09
p@chr5:32829061..32829092,+ [rs7733331]0.370.770.19
p@chr10:75409754..75409787,- [rs9664184, rs12247028]0.2710.34
p14@CSK [rs2168519, rs8033381]0.1810.48
p@chr10:104905957..104905982,- [rs11191580]0.1710.48
enhancer@chr20:57740587-57741260 [rs6026742]0.1210.57
p@chr10:104591351..104591362,+ [rs17115100]0.0910.65
p@chr17:43195790..43195798,- [rs3744760]0.0610.69
p@chr12:90090838..90090842,- [rs11105378, rs12230074]0.0210.79
p5@FURIN [rs4932178]0.0210.79
enhancer@chr10:104769429-104769711 [rs11191511]0.011.0
DOWNLOAD RESULTS FILES:
Full results table
Layout file (open with Biolayout)